Latest revision as of 20:39, 18 September 2015

NOTEBOOK

December

9.12.-13.12. We filled a survey to become next generation of ATOMS members.

Waiting in excitement and wondering who will be the members of this year’s team.

22.12. Aaaaand the results of the interviews we made are announced! Now we’re a crowded team of 25 people. Let’s see what’ll happen next.

26.12. Had our first meeting and our first topic was: sponsorship.

January

We had training classes at 08.01-10.01. January. Now it is time to learn what iGEM wants from us.

10.01.-23.01. We made researches about previous iGEM teams, wondering who did what.

23.01.-28.01. Hooray! It’s holiday! Home sweet home.

It’s time to find our own project. After now, we started to have meetings every Monday and Thursday, becase we need to work a lot for finding a new project. Also, still trying to find sponsors.

February

01.02. As we are ATOMS, those Sundays needed to be filled too! We made subgroups in our team and started to search previous Grand Prized-Teams. Now every group will present a team at the meetings.

We have just built ATOMS gene library.

02.02. We decided to attend some competitions due to the lack of sponsors. We attended ‘illnesses with imagery’. Talented people is a must in a team.

13.02. Drawings were done and sent. We believe we will be successful. We are still doing researches in full swing.

March

05.03. Today they filmed our school, and our laboratory so. We had so much fun while they were shooting us!

11.03. The art competiton’s results are just announced. Disappointment. There was not even a winner of first place. We convinced ourselves with thinking they don’t have a sense of art.

14.03. We made a biobrcik design workshop till we see the sunlight! At the late times of night, every group explained their biobrick designs. Now everyone knows what a promoter is :)

17.03. Lab-cleaning party! We don’t wanna be contaminated.

April

05.04. We bid farewell to our teammate Furkan Beştepe. He went to USA.

10.04. Happy birthday Gülnihal! By the way your birthday cake was yummy.

12.04. Daytime wasn’t enough so we started to have meetings in the nights! After working a lot, we deserved eating a delicious meal. Today we also started to search about Toehold.

13.04. We are still learnig about Toehold. It has a potential to be used.

27.04. Fun at the lab.

30.04. ATOMS Ladieas worked on a universal blood idea till the morning.

May

03.05. We must hurry up to find a project. Camp time at Asya Thermal Hotel.

04.05. Why there isn’t anyone in the lab?

06.05. Finally found our project idea! ULCER AND CANCER

09.05. Perfecting our cancer switch system.

15.05. Presented our project to the dean Mehmet Gündüz and the whole genetic department of our faculty! He treated us with Turkish tea and snacks.

24.05. We held a meet-up with other Turkish iGEM teams! Time to make some presentations.

June

This month we designed our genes and studied for our exams at the same time. In short it was a tough week.

Week 1

Gradient PCR of „pCAG with CMV-Enhancer FWD/Cβ-Actin REV. Primers” (29.06.2015)

Gradient PCR from pCAGGS
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	16.3 ul	2.0 ul	25.0 ul
9X	22.5 ul	22.5 ul	4.5 ul	4.5 ul	4.5 ul	1.8 ul	146.7 ul	18.0 ul	225.0 ul

57-64˚C

Results weren’t matching with expected results, experiment will be repeated.

Gradient PCR from pCAGGS
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	16.3 ul	2.0 ul	25.0 ul
9X	22.5 ul	22.5 ul	4.5 ul	4.5 ul	4.5 ul	1.8 ul	146.7 ul	18.0 ul	225.0 ul

52-59˚C

Results weren’t matching with expected results, experiment will be repeated.

July

01.07. Some preparetions were made for experiments.

05.07. Today is the first day of shooting. We just learned picking costumes isn’t as easy as we think.

06.07. If there is a film, then there is After Effects work to do. Good luck with this, dear teammate Şahika.

08.07. We made a presentation to the pre-med students which came from USA for intership and they loved our project.

21.07. Drawing pictures for wiki began. Thus we discovered our teammate Kevser’s hidden talents.

22.07. Our gene blocks has just arrived. Let the experiments begin! We are all ready now.

29.07. We released our first video of Virtual Hospital. Also arm’s design is finished.

Week 2

Gradient PCR of „pCAG with CAG FWD/CAG REV. Primers/pCMV REV.” (01.07.2015)

Gradient PCR from pCAGGS (CAG FWD – CAG REVERSE)
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	16.3 ul	2.0 ul	25.0 ul
9X	22.5 ul	22.5 ul	4.5 ul	4.5 ul	4.5 ul	1.8 ul	146.7 ul	18.0 ul	225.0 ul

60-68˚C

Results weren’t matching with expected results, experiment will be repeated.

Gradient PCR from pCAGGS (CAG FWD – Chicken β Aktin REVERSE)
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	16.3 ul	2.0 ul	25.0 ul
9X	22.5 ul	22.5 ul	4.5 ul	4.5 ul	4.5 ul	1.8 ul	146.7 ul	18.0 ul	225.0 ul

60-68˚C

Results weren’t matching with expected results, experiment will be repeated.

Protocols of „Phusion Pol, and Q5 Polymerase” (02.07.2015)

Phusion DNA Polymerase
	dNTP	Fwd primer	Rev primer	Buffer	Phusion Pol.	ddH₂O	DNA	Total
1x	0.4 ul	2.0 ul	2.0 ul	4.0 ul	0.2 ul	10.4 ul	1.0 ul	20.0 ul

Cycling
	98˚C	98˚C	56˚C	72˚C	72˚C	Cycle
Time	2’	10’’	30’’	1’	5’	35x

Q5 DNA Polymerase
	dNTP	Fwd primer	Rev primer	Buffer	Q5 Pol.	ddH₂O	DNA	Total
1x	0.5 ul	2.5 ul	2.5 ul	5.0 ul	0.25 ul	8.25 ul	1.0 ul	20.0 ul

Cycling
	98˚C	98˚C	56˚C	72˚C	72˚C	Cycle
Time	2’	10’’	30’’	1’	5’	35x

Defterde jel görüntüsü yok.

Week 3

Gradient PCR of „pCAG with CAG-FWD/CAG REV. Primers and Phusion Pol.”

Gradient PCR from pCAGGS
	dNTP	Fwd primer	Rev primer	Buffer	Phusion Pol.	ddH₂O	DNA	Total
1x	0.4 ul	2.0 ul	2.0 ul	4.0 ul	0.2 ul	10.4 ul	1.0 ul	20.0 ul

62-64˚C

Result: Gel extraction was performed. PCR (+): 680 bp

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	eb	biospec	7/8/2015 1:56:43 AM	0.1	ng/ul	0.002	-0.009	-0.25	-0.19	DNA	50.00
2	pCAG	biospec	7/8/2015 1:58:14 AM	13.7	ng/ul	0.275	0.138	1.98	0.15	DNA	50.00

Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG”

Digestion of “pTRE” and “Promoter pCAG”
	pTRE (1536 ng/ul)	pCAG (promoter) (13.7 ng/ul)	EcoRI	XhoI	Neb 3.1 Buffer	ddH₂O	Total
1	3.2 ul	-	0.5 ul	0.5 ul	2.0 ul	13.8 ul	20.0 ul
2	-	10.0 ul	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul

pTRE-delta-TRE was made after digestion.

Concentration: 99.9 ng/ul

The final concentration of pCAG is 6.855 ng/ul.

Ligation of „pTRE TRE“ and „Digested promoter pCAG“

	pTRE TRE
pCAG	T4 DNA Ligase	Buffer	ddH₂O	Total
1:1	3.0 ul	7.0 ul	0.5 ul	2.0 ul	7.5 ul	20.0 ul

Ligation products were transformed into E.Coli/BL321 strain.

Result: No colonies were observed.

Digestion of “pTEToff and pET45 Vectors”

Digestion of “pTEToff and pET45 Vectors”
	pTEToff (1141 ng/ul)	pET45 (485 ng/ul)	XhoI (Neb)	BamHI (Neb)	SalI (Thermo)	HindIII (Thermo)	Cut Smart Buffer	Fast Digest Buffer	ddH₂O	Total
1	3.1 ul	-	-	-	0.5 ul	0.5 ul	-	2.0 ul	13.9 ul	20.0 ul	37˚C 1h
2	-	4.1 ul	0.5 ul	0.5 ul	-	-	2.0 ul	-	12.9 ul	20.0 ul	37˚C 2h

Result: Bands were at the expected section. Gel extraction was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	eb	biospec	7/10/2015 11:37:54 PM	-0.4	ng/ul	-0.008	-0.015	0.58	-0.39	DNA	50.00
2	pET45 x+b	biospec	7/10/2015 11:40:59 PM	59.0	ng/ul	1.180	0.612	1.93	0.74	DNA	50.00
3	pTEToff s+h	biospec	7/10/2015 11:41:58 PM	55.5	ng/ul	1.110	0.581	1.91	0.25	DNA	50.00

Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG” – Repeat

Digestion of “pTRE with EcoRI/XhoI”
	pTRE	XhoI	EcoRI	Neb 2.1 Buffer	ddH₂O	Total
1	3.2 ul	0.5 ul	0.5 ul	2.0 ul	13,8 ul	20.0 ul	37˚C 2h
2	3.2 ul	0.5 ul	0.5 ul	2.0 ul	13,8 ul	20.0 ul	37˚C 2h/0.5 ul CIP/37˚C 30’/50˚C 30’

Result: Gel extraction was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	eb	biospec	7/9/2015 6:32:17 PM	-0.7	ng/ul	-0.015	-0.022	0.66	0.21	DNA	50.00
2	hre cmv mini	biospec	7/9/2015 6:34:10 PM	13.8	ng/ul	0.277	0.141	1.97	0.03	DNA	50.00
3	ptre delta tre cip -	biospec	7/9/2015 6:34:54 PM	88.7	ng/ul	1.774	0.941	1.88	0.24	DNA	50.00
4	ptre delta tre cip +	biospec	7/9/2015 6:35:35 PM	86.0	ng/ul	1.721	0.947	1.82	0.25	DNA	50.00

Creating “Plasmid pCAG” – Continue

Ligation of „pTRE TRE“ and „Digested promoter pCAG“

	pTRE TRE CIP (+)	pTRE TRE CIP (-)	pCAG (6.85 ng/ul)	T4 DNA Ligase	Buffer	ddH₂O	Total
1	3.0 ul	-	7.0 ul	0.5 ul	2.0 ul	7.5 ul	20.0 ul
2	-	3.0 ul	7.0 ul	0.5 ul	2.0 ul	7.5 ul	20.0 ul

Room Temperature 1h

Result: Transformation was made. No colonies were observed at first plate. At the second plate there was five colonies. Colony PCR will be made.

Week 4

Creating “Plasmid pCAG” – Continue

Colony PCR from “pCAG” with “pTRE Luc fwd/SV40 polyA re. primers”
	MgCl₂	(NH₄)2SO₄	pTRE Luc fwd	SV40 rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
6X	15.0 ul	15.0 ul	6.0 ul	6.0 ul	3.0 ul	1.2 ul	73.8 ul		120.0 ul

Cycling
	95˚C	95˚C	55˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: All bands were observed around 700 bp, results were negative. Ligation will be repeated.

(+) bant: 923 bp

(-) bant: 705 bp

Creating “Plasmid pCAG” – Repeat

Ligation of „pTRE TRE“ and „Digested Promoter pCAG“

	pTRE TRE CIP (+)	pTRE TRE CIP (-)	pCAG (6.85 ng/ul)	T4 DNA Ligase	Buffer	ddH₂O	Total
1	3.0 ul	-	2.5 ul	0.5 ul	2.0 ul	12.0 ul	20.0 ul
2	-	3.0 ul	2.5 ul	0.5 ul	2.0 ul	12.0 ul	20.0 ul

Vector:Insert

3:1

RT 2h

Transformation at BL21.

CIP (+): No colonies were absorved.

CIP (-): Colony PCR will be made.

Week 5

Creating “Plasmid pCAG” – Continue

Colony PCR from “pCAG” with “pTRE Luc fwd/SV40 polyA re. primers”
	MgCl₂	(NH₄)2SO₄	pTRE Luc fwd	SV40 rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
6X	15.0 ul	15.0 ul	6.0 ul	6.0 ul	3.0 ul	1.2 ul	73.8 ul		120.0 ul

Cycling
	95˚C	95˚C	55˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: All bands were observed around 700 bp, results were negative. Ligation will be repeated.

(+) bant: 923 bp

(-) bant: 705 bp

Creating “pCAG (Plasmid) – Repeat

PCR from “pCAGGS”
	dNTP	CAG fwd	CAG rev	Chicken β Akt. Rev	pCAGGS	Phusion Pol	Buffer	ddH₂O	Total
1	2.0 ul	10.0 ul	10.0 ul	-	5.0 ul	1.0 ul	20.0 ul	52.0 ul	100.0 ul
2	2.0 ul	10.0 ul	-	10.0 ul	5.0 ul	1.0 ul	20.0 ul	52.0 ul	100.0 ul

Cycling
	98˚C	98˚C	64/68˚C	72˚C	72˚C	Cycle
Time	2’	10’’	30’’	1’	5’	35x

Gel Extraction will made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	eb	biospec	7/23/2015 6:56:38 PM	0.2	ng/ul	0.005	0.005	0.92	0.14	DNA	50.00
2	pcag e	biospec	7/23/2015 6:58:03 PM	42.9	ng/ul	0.858	0.450	1.91	1.97	DNA	50.00
3	pcag y	biospec	7/23/2015 6:58:53 PM	23.3	ng/ul	0.466	0.233	2.00	1.94	DNA	50.00

Resuspension of “Newly Arrived G-Blocks from IDT”

100 ul TE for all tubes.

		ng	fmol	TE ul	fmol/ul	ul of inserts for 75 fmol
1	Toehold for cola	1000	1523	100	15.23	4.92449
2	TnrA-pTnrA-RFP	1000	1032	100	10.32	7.26744
3	ColA-KanR-dTer	1000	816	100	8.16	9.19118
4	HNS for PET	500	1578	100	15.78	4.75285
5	HNS-T108I for PET	500	1578	100	15.78	4.75285
6	potB59-pomA for PET	1000	892	100	8.92	8.40807
7	Gad E – for PET	500	1291	100	12.91	5.80945
8	TlpB for PET	1000	901	100	9.01	8.32408
9	DAMP-Pex for PET/pcolA	1000	2089	100	20.89	3.59023
10	Tev Protease for PET	1000	1948	100	19.48	3.8501
11	miRNA switch- miR373- BS for pTET	500	2212	100	22.12	3.3906
12	LacO- DsRed- miR26a-375 pC	1000	1709	100	17.09	4.38853
13	mLacI-miR373 BS for pTRE	1000	1280	100	12.8	5.85938
14	miRNA switch- miR 21 BS- miR 223	1000	1902	100	19.02	3.94322
15	mLacI-miR223 BS miR 21 BS for pTRE	1000	1272	100	12.72	5.89623
16	Trigger RNA for pSB1C3	250	1910	100	19.1	3.9267
17	PsicA for pSB1C3	1000	1546	100	15.46	4.86
18	MVF-sicA for ColA	1000	1042	100	10.42	7.20

Not: 100ng pSB1C3 (2050 bp) ≈ 75 fmol
PCR of “G-Blocks from IDT” (24.07.2015)

PCR from G-Bloks
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rev	tetR rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
3x (pTEToff)	7.5 ul	7.5 ul	1.5 ul	-	1.5 ul	1.5 ul	1.6 ul	36.9 ul		58.0 ul
15x	37.5 ul	37.5 ul	7.5 ul	7.5 ul	-	7.5 ul	3.0 ul	184.5 ul		285.0 ul

Cycling for 3x
	95˚C	95˚C	57˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Cycling for 15x
	95˚C	95˚C	60˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Results: Bands were at the expected section.

Gel Extraction

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/24/2015 12:40:09 PM	-0.8	ng/ul	-0.016	-0.020	0.79	0.24	DNA	50.00
2	pSB1C3	biospec	7/24/2015 12:41:56 PM	42.2	ng/ul	0.848	0.430	1.97	2.05	DNA	50.00

Ligation of „G-Blocks from IDT and pSB1C3“

Ligation
	Insert DNA	Vector (pSB1C3)	T4 DNA Buffer	T4 DNA Ligase	ddH₂O	Total
1	4.9 ul	2.5 ul	2.0 ul	1.0 ul	9.8 ul	20.0 ul
2	7.2 ul	2.5 ul	2.0 ul	1.0 ul	7.3 ul	20.0 ul
3	9.2 ul	2.5 ul	2.0 ul	1.0 ul	5.3 ul	20.0 ul
4	4.8 ul	2.5 ul	2.0 ul	1.0 ul	9.7 ul	20.0 ul
5	4.8 ul	2.5 ul	2.0 ul	1.0 ul	9.7 ul	20.0 ul
6	8.4 ul	2.5 ul	2.0 ul	1.0 ul	6.1 ul	20.0 ul
7	5.8 ul	2.5 ul	2.0 ul	1.0 ul	8.7 ul	20.0 ul
8	4.9 ul	2.5 ul	2.0 ul	1.0 ul	9.6 ul	20.0 ul

RT 1h

Transformation was made.

(The results of psb1c3 gel extraction was lower. So we performed only the first 7 gene ligation.)

1	Toehold for cola
2	TnrA-pTnrA-RFP
3	ColA-KanR-dTer
4	HNS for PET
5	HNS-T108I for PET
6	potB59-pomA for PET
7	Gad E – for PET
8	TlpB for cola (NEB1)

Creating “Plasmid pCAG”

Digestion
	pTRE (1536 ng/ul)	pCAG (promoter) E	pCAG (promoter) Y	EcoRI	XhoI	Cut Smart Buffer	ddH₂O	Total
1	3.2 ul	-	-	0.5 ul	0.5 ul	2.0 ul	13.8 ul	20.0 ul	37˚C 2h
2	-	10 ul	-	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C 2h
3	-	-	10 ul	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight

Bands were at the expected section. Gel extraction wil be made.

The Final Concentration

pCAG E: 21.5 ng/ul

pCAG Y: 12 ng/ul

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	eb	biospec	7/25/2015 5:03:57 AM	1.4	ng/ul	0.028	0.006	4.60	0.48	DNA	50.00
2	eb	biospec	7/25/2015 5:05:57 AM	0.0	ng/ul	0.000	-0.012	-0.03	0.06	DNA	50.00
3	ptre delta tre	biospec	7/25/2015 5:07:44 AM	194.0	ng/ul	3.880	2.033	1.91	2.20	DNA	50.00

Colony PCR of “pSB1C3 – GBlocks”

PCR from “pCAGGS”
	PCR MM	VR fwd	VR rev	ddH₂O	Tag	DNA	Total
1x	14.0 ul	1.0 ul	1.0 ul	7.5 ul	0.2 ul	5.0 ul	28.7 ul
33x	462.0 ul	33.0 ul	33.0 ul	247.5 ul	6.6 ul	165.0 ul	940.5 ul
33x	462.0 ul	33.0 ul	33.0 ul	247.5 ul	6.6 ul	165.0 ul	940.5 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Sonuc: 8-3 ve 4-9 bands were at the expected section. Liquid Culture was made.

Colony PCR of “G-Blocks” (25.07.2015)

Colony PCR of “2,3,6,8”
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	24.0 ul
6X	15.0 ul	15.0 ul	3.0 ul	3.0 ul	3.0 ul	1.2 ul	73.8 ul		114.0 ul

Colony PCR of “7,10,12,13”
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	24.0 ul
6X	15.0 ul	15.0 ul	3.0 ul	3.0 ul	3.0 ul	1.2 ul	73.8 ul		114.0 ul

Colony PCR of “1,4,9,15”
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
6X	15.0 ul	15.0 ul	3.0 ul	3.0 ul	3.0 ul	1.2 ul	79.8 ul		120.0 ul

Colony PCR of “5,16”
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
2X	5.0 ul	5.0 ul	1.0 ul	1.0 ul	1.0 ul	0.4 ul	26.6 ul		40.0 ul

Cycling
	95˚C	95˚C	60˚C	72˚C	72˚C	Cycle
Time	5’	30’’	2’	1.5’	5’	35x

G-Blocks PCR / Gel Electrophoresis

PCR
	MgCl₂	(NH₄)2SO₄	CMV fwd	TetR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
6X	15.0 ul	15.0 ul	3.0 ul	3.0 ul	3.0 ul	1.2 ul	79.8 ul		120.0 ul

Cycling
	95˚C	95˚C	60˚C	72˚C	72˚C	Cycle
Time	5’	30’’	2’	1.5’	5’	35x

Result: negative

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/26/2015 7:04:13 PM	0.8	ng/ul	0.016	-0.014	-1.13	1.36	DNA	50.00
2	blank	biospec	7/26/2015 7:05:51 PM	-0.4	ng/ul	-0.009	-0.017	0.52	0.17	DNA	50.00
3	colony pcr 8-3	biospec	7/26/2015 7:07:15 PM	87.9	ng/ul	1.758	0.908	1.94	2.09	DNA	50.00
4	colony pcr 4-9	biospec	7/26/2015 7:08:09 PM	101.4	ng/ul	2.027	1.089	1.86	1.74	DNA	50.00
5	colony pcr 4-9	biospec	7/26/2015 7:09:06 PM	71.4	ng/ul	1.429	0.749	1.91	1.96	DNA	50.00
6	colony pcr 8-3	biospec	7/26/2015 7:10:03 PM	87.9	ng/ul	1.758	0.910	1.93	2.10	DNA	50.00
7	colony pcr 4-9	biospec	7/26/2015 7:11:01 PM	57.1	ng/ul	1.142	0.596	1.91	1.77	DNA	50.00
8	colony pcr 4-9	biospec	7/26/2015 7:12:18 PM	77.2	ng/ul	1.543	0.820	1.88	1.76	DNA	50.00

Colony PCR of “pSB1C3- GBlocks”

Gradient PCR from pCAGGS
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	12.3 ul	5.0 ul	25.0 ul
41X	102.5 ul	102.5 ul	41.0 ul	41.0 ul	20.5 ul	504.3 ul		881.8 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “pTEToff”

Digestion
	pTEToff (1141 ng/ul)	SalI (Thermo)	HindIII (Thermo)	Fast Digest Buffer	ddH₂O	Total
Volume	3.1 ul	0.5 ul	0.5 ul	2.0 ul	13.9 ul	20.0 ul

37˚C 1h

Result: Bands were at the expected section. Gel purification was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/26/2015 4:18:56 PM	0.3	ng/ul	0.005	-0.010	-0.56	-0.38	DNA	50.00
2	Ptetoff SalI hindIII	biospec	7/26/2015 4:20:23 PM	43.3	ng/ul	0.866	0.452	1.92	0.88	DNA	50.00

Creating “Plasmid pCAG” – Continue (27.07.2015)

Ligation of „pTRE TRE“ and „Digested pCAG“

	pTRE TRE (194 ng/ul)	pCAG E (21.5 ng/ul)	pCAG Y (12.0 ng/ul)	T4 DNA Ligase	Buffer	ddH₂O	Total
1	1.0 ul	2.0 ul	-	0.5 ul	2.0 ul	14.5 ul	20.0 ul
2	1.0 ul	-	3.6 ul	0.5 ul	2.0 ul	12.9 ul	20.0 ul

Result: On the first plate was six colonies. On the second plate was nine colonies.

Colony PCR will be made.
Colony PCR of „pCAG (plasmid)“

PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
16X	40.0 ul	40.0 ul	16.0 ul	16.0 ul	8.0 ul	3.2 ul	196.8 ul		320.0 ul

Cycling
	95˚C	95˚C	55˚C	72˚C	72˚C	Cycle
Time	5’	30’’	2’	1.5’	5’	35x

</html> <a href="" data-lightbox="image-1" class="img="left"><img src="" width="390" height="230"></a>

Result: negative

Colony PCR of “pSB1C3 – Gblocks” {| border="1" class="wikitable" !PCR |- |||MgCl₂||(NH₄)2SO₄||VR fwd||VR rv||dNTP||Tag||ddH₂O||DNA||Total |- |1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul |- |57X||143.0 ul||143.0 ul||57.0 ul||57.0 ul||29.0 ul||11.4 ul||701.0 ul||||1141.4 ul |- |57X||143.0 ul||143.0 ul||57.0 ul||57.0 ul||29.0 ul||11.4 ul||701.0 ul||||1141.4 ul |} {| border="1" class="wikitable" !Cycling |- |||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle |- |Time||5’||30’’||30’’||1.5’||5’||35x |}

Result: Only 16-9 is positive.

Colony PCR of “pSB1C3 – Gblocks”

Colony PCR of “2,3,8,9,11,13,14”
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
66X	165.0 ul	165.0 ul	66.0 ul	66.0 ul	33.0 ul	13.2 ul	811.8 ul		1650.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “HNS, HNS-T108I, potB59-pomA, GadE, TlpB, DAMP-Pex, Tev Protease” (27.07.2015)

Inserts from GBlocks were digested to ligate with PET45.

	4	5	6	7	8	9	10
HNS (4)	10.0 ul	-	-	-	-	-	-
HNS-T108I (5)	-	10.0 ul	-	-	-	-	-
potB59-pomA (6)	-	-	10.0 ul	-	-	-	-
GadE (7)	-	-	-	10.0 ul	-	-	-
TlpB (8)	-	-	-	-	10.0 ul	-	-
DAMP-Pex (9)	-	-	-	-	-	10.0 ul	-
Tev Protease (10)	-	-	-	-	-	-	10.0 ul
Cut Smart Buffer	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul
₂XhoI	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul
BamHI-HF	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul
Milli-Q	7.0 ul	7.0 ul	7.0 ul	7.0 ul	7.0 ul	7.0 ul	7.0 ul

Total: 20 ul

37˚C overnight

Ligation will be made.
Ligation of “GBlocks (4,5,6,7,8,10)” and “PET45 (X+B)”

	4	5	6	7	8	10
Insert DNA	4.75 ul	4.75 ul	4.75 ul	4.75 ul	4.75 ul	4.75 ul
Vector (PET45)	2.20 ul	2.20 ul	.,20 ul	2.20 ul	2.20 ul	2.20 ul
Buffer	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul
T4 DNA Ligase	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul	0.5 ul
ddH₂O	10.55 ul	10.55 ul	10.55 ul	10.55 ul	10.55 ul	10.55 ul
Total	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul

Room Temperature 2h

	11	14
Insert DNA	3.4 ul	3.95 ul
Vector (PET45)	2.20 ul	2.20 ul
Buffer	2.0 ul	2.0 ul
T4 DNA Ligase	0.5 ul	0.5 ul
ddH₂O	11.9 ul	11.35 ul
Total	20.0 ul	20.0 ul

</html> Room Temperature 2h

Creating of “pTRE – mLacI miRNA-BS” </html>

Digestion of “pTRE” and G-Blocks”
	pTRE	EcoRI-HF	BamHI-HF	mLacI-miR 373 BS	mLacI-miR (21-223) BS	Cut Smart	ddH₂O	Total
1	3.1 ul	0.5 ul	0.5 ul	-	-	2.0 ul	13.9 ul	20.0 ul	37˚C-3h Gel Elect.
2	-	0.5 ul	0.5 ul	10.0 ul	-	2.0 ul	7.0 ul	20.0 ul	37˚C overnight/80˚C-10’ heat inactivation
3	-	0.5 ul	0.5 ul	-	10.0 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight/80˚C-10’ heat inactivation

Gel purification was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/27/2015 2:26:05 PM	0.3	ng/ul	0.007	-0.004	-1.71	0.20	DNA	50.00
2	pTRE e+b	biospec	7/27/2015 2:27:08 PM	92.9	ng/ul	1.859	1.015	1.83	1.24	DNA	50.00

Creating of “pTRE – mLacI miRBS” (27.07.2015)

Ligation of „pTRE” and “mLacI miRBS”
	Digested pTRE	D. mLacI miR373 BS	D. mLacI miR(21-223) BS	T4 DNA Ligase	T4 DNA Buffer	ddH₂O	Total
1	1.0 ul	5.9 ul	-	2.0 ul	0.5 ul	10.6 ul	20.0 ul
2	1.0 ul	-	5.9 ul	2.0 ul	0.5 ul	10.6 ul	20.0 ul

Room Temperature 2h

Transformation was made with TOP10.
Creating of “pTEToff – miRBS” (27.07.2015)

Digestion
	pTEToff (2.5 ng/ul)	miRNA switch miR373 BS	miRNA switch miR(223-21) BS	SalI (FD)	HindIII (FD)	Fast Digest Buffer	ddH₂O	Total
1	2.0 ul	-	-	0.5 ul	0.5 ul	5.0 ul	42.0 ul	50.0 ul	37˚C-3h Gel Elect.
2	-	10.0 ul	-	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight/80˚C-10’ heat inactivation
3	-	-	10.0 ul	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight/80˚C-10’ heat inactivation

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/27/2015 8:35:05 PM	0.0	ng/ul	0.000	-0.013	-0.01	0.01	DNA	50.00
2	pTRE s+h	biospec	7/27/2015 8:36:16 PM	76.7	ng/ul	1.534	0.810	1.89	1.05	DNA	50.00

Creating of “pTEToff – miRNA Switch miR BS” (28.07.2015)

Ligation of „pTRE” and “mLacI miRBS”
	Digested pTEToff	D. mLacI miR373 BS	D. mLacI miR(21-223) BS	T4 DNA Ligase	T4 DNA Buffer	ddH₂O	Total
1	2.2 ul	3.4 ul	-	2.0 ul	0.5 ul	10.9 ul	20.0 ul
2	2.2 ul	-	4.0 ul	2.0 ul	0.5 ul	11.3 ul	20.0 ul

Room Tempretare 2h

Transformation was made.
Creating of “pCAG”

Digestion of “pCAG (Promotor)”
	pCAG (promoter) E	pCAG (promoter) Y	EcoRI-HF	XhoI-HF	Cut Smart Buffer	ddH₂O	Total
1	10.0 ul	-	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight
2	-	10.0 ul	0.5 ul	0.5 ul	2.0 ul	7.0 ul	20.0 ul	37˚C overnight

Mini Prep of “Colony PCR 16-9” {| border="1" class="wikitable" !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor |- |1||blank||biospec||7/28/2015 12:11:17 PM||-1.9||ng/ul||-0.038||-0.049||0.77||0.19||DNA||50.00 |- |2||blank||biospec||7/28/2015 12:12:22 PM||-0.4||ng/ul||-0.007||-0.014||0.53||0.30||DNA||50.00 |- |3||colony pcr 16-9||biospec||7/28/2015 12:13:33 PM||84.9||ng/ul||1.698||0.881||1.93||2.02||DNA||50.00 |- |4||colony pcr 16-9||biospec||7/28/2015 12:14:24 PM||76.3||ng/ul||1.527||0.797||1.92||1.95||DNA||50.00 |}
Mini Prep of “pTEToff”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	7/30/2015 4:44:01 PM	0.4	ng/ul	0.008	-0.005	-1.55	1.11	DNA	50.00
2	ptetoff neb	biospec	7/30/2015 4:45:00 PM	442.2	ng/ul	8.884	4.683	1.89	2.20	DNA	50.00
3	ptetoff bl21	biospec	7/30/2015 4:46:08 PM	314.3	ng/ul	6.286	3.317	1.90	2.22	DNA	50.00

Cut Check of “HNS toehold and Trigger RNA” (30.07.2015) {| border="1" class="wikitable" !!!HNS (70 ng/ul)!!TlpB (87 ng/ul)!!Trigger RNA (80 ng/ul)!!EcoRI (Thermo)!!PstI (Thermo)!!Fast Digest Buffer!!ddH₂O!!Total!! |- |1||3.5 ul||-||-||1.0 ul||1.0 ul||2.0 ul||12.5 ul||20.0 ul||37˚C 20min |- |2||-||3.0 ul||-||1.0 ul||1.0 ul||2.0 ul||13.0 ul||20.0 ul||37˚C 20min |- |3||-||-||3.0 ul||1.0 ul||1.0 ul||2.0 ul||13.0 ul||20.0 ul||37˚C 20min |}

Gel Electropheres was made.

Result: Bands were at the expected section.

HNS: 480 bp

tgRNA:˞ 100bp

Toehold: ˃1000bp

Colony PCR of „9-10 GBlocks“

Result: negative

Expected: ˞1100 bp

Observed: ˞300 bp

Gel extraction 1-6

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/2/2015 12:01:41 AM	0.2	ng/ul	0.004	-0.002	-2.02	17.14	DNA	50.00
2	psb1c3	biospec	8/2/2015 12:31:14 AM	43.0	ng/ul	0.861	0.462	1.87	0.94	DNA	50.00

Gel extraction 8-9

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/2/2015 12:27:36 AM	-0.4	ng/ul	-0.009	-0.012	0.74	-0.09	DNA	50.00
2	psb1c3 atoms	biospec	8/2/2015 12:34:11 AM	10.4	ng/ul	0.208	0.111	1.87	0.03	DNA	50.00

Colony PCR of „pSB1C3 – Gblocks“

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
17X	42.5 ul	42.5 ul	8.5 ul	8.5 ul	8.5 ul	3.4 ul	226.1 ul		340.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

August

11.08. We started designing our wiki.

18.08.2015 We got a little tired of doing experiments, so treated ourselves with an awesome team dinner at a fish restaurant.

22.08.2015 A team dinner again, but this time our dear professors Mehmet and Esra Gündüz hosted us at their house.

29.08.2015 Wiki’s tour part is drawn, now it’s time to color these drawings!

Week 6

Mini Prep of “pSB1C3-RFP”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/1/2015 6:03:37 PM	-0.1	ng/ul	-0.003	-0.009	0.30	0.12	DNA	50.00
2	psb1c3-A	biospec	8/1/2015 6:06:00 PM	207.0	ng/ul	4.140	2.184	1.90	2.11	DNA	50.00
3	psb1c3-B	biospec	8/1/2015 6:07:07 PM	209.0	ng/ul	4.179	2.210	1.89	2.19	DNA	50.00
4	psb1c3-C	biospec	8/1/2015 6:08:05 PM	157.3	ng/ul	3.147	1.664	1.89	2.09	DNA	50.00
5	psb1c3-D	biospec	8/1/2015 6:08:58 PM	242.5	ng/ul	4.851	2.548	1.90	2.11	DNA	50.00
6	psb1c3-E	biospec	8/1/2015 6:09:42 PM	116.4	ng/ul	2.329	1.215	1.92	2.17	DNA	50.00
7	psb1c3-F	biospec	8/1/2015 6:10:28 PM	236.4	ng/ul	4.729	2.503	1.89	2.17	DNA	50.00
8	psb1c3-71	biospec	8/1/2015 6:11:33 PM	111.7	ng/ul	2.233	1.175	1.90	2.10	DNA	50.00
9	psb1c3-72	biospec	8/1/2015 6:12:14 PM	106.4	ng/ul	2.127	1.100	1.93	2.23	DNA	50.00
10	psb1c3-8	biospec	8/1/2015 6:12:51 PM	90.7	ng/ul	1.814	0.959	1.89	1.98	DNA	50.00

Ligation of „pSB1C3 – Gblocks“

	2	3	5	6	7	8	9	10	11	12	13	14	15
Insert	7.3 ul	7.0 ul	4.8 ul	8.4 ul	5.8 ul	8.3 ul	3.6 ul	3.9 ul	3.4 ul	4.4 ul	5.9 ul	3.9 ul	5.9 ul
Vector	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul
Buffer	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul	2.0 ul
Enzyme	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul	1.0 ul
ddH₂O	7.7 ul	8.0 ul	10.2 ul	6.6 ul	9.2 ul	6.7 ul	11.4 ul	11.1 ul	11.6 ul	10.6 ul	9.1 ul	11.1 ul	9.1 ul
Total	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul	20.0 ul

Week 7

Colony PCR of „pSB1C3 – Gblocks“

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
22X	55.0 ul	55.0 ul	22.0 ul	22.0 ul	11.0 ul	4.4 ul	271.0 ul		440.4 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of „pSB1C3 – Gblocks #14“

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR fwd	VR rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
36X	90.0 ul	90.0 ul	36.0 ul	36.0 ul	18.0 ul	7.2 ul	442.8 ul		720.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “pSB1C3-RFP”

Digestion of “pSB1C3-RFP”
	Vector	Fast Digest Buffer	EcoRI (FD)	PstI (FD)	ddH₂O	Total
1x	2.0 ul	2.0 ul	1.0 ul	1.0 ul	14.0 ul	20.0 ul

37˚C 2h

Gel Electropheresis was made.

Result: Bands were at the expected section. Gel purification was made.

Ligation of “pSB1C3 – Gblock #14”

Ligation of “pSB1C3 – Gblock #14”
	Insert	Vector	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
1) PCR clean up vektörü ile 2.5 ul	2.5 ul	2.0 ul
(100ng)	2.0 ul
	1.0 ul	12.5 ul	20.0 ul
2) Gel Extraction 7.5 ul	7.5 ul	0.8 ul
(50ng)	2.0 ul
	1.0 ul	8.7 ul	20.0 ul

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/3/2015 6:10:02 PM	0.2	ng/ul	0.004	-0.010	-0.41	1.13	DNA	50.00
2	psb1c3 gel	biospec	8/3/2015 6:12:16 PM	62.5	ng/ul	1.250	0.664	1.88	0.90	DNA	50.00
4	psb1c3 clean-up	biospec	8/3/2015 6:13:39 PM	170.5	ng/ul	3.409	1.884	1.81	1.33	DNA	50.00

PCR of “G-Bloks via Q5 Polymerase” (04.08.2015)

PCR
	SV40 poly A rev	CMV fwd	tetR rev	2x Q5 Master Mix	DNA	Total
1x	2.5 ul	2.5 ul	2.5 ul	10.0 ul	5.0 ul	20.0 ul

Cycling SV40 rev/CMV fwd
	95˚C	95˚C	63˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1’	2’	35x

Cycling CMV fwd/tetR rev
	98˚C	98˚C	66˚C	72˚C	72˚C	Cycle
Time	30’’	10’’	30’’	1’	2’	35x

Digestion of “pSB1C3-RFP”

Digestion
	Vector	Cut Smart Buffer	EcoRI	SpeI	ddH₂O	Total
1x	2.0 ul	2.0 ul	1.0 ul	1.0 ul	14.0 ul	20.0 ul

37˚C 4h

Result: Bands were at the expected section.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/4/2015 7:03:09 AM	0.9	ng/ul	0.017	0.005	3.41	0.68	DNA	50.00
2	Blank2	biospec	8/4/2015 7:04:51 AM	-0.5	ng/ul	-0.010	-0.017	0.59	0.45	DNA	50.00
4	clean up	biospec	8/4/2015 7:05:55 AM	86.8	ng/ul	1.735	0.913	1.90	0.40	DNA	50.00
5	gel ext	biospec	8/4/2015 7:06:51 AM	36.2	ng/ul	0.723	0.380	1.90	0.29	DNA	50.00

Colony PCR of “11,12,13 pSB1C3 - GBlocks”

Colony PCR
	MgCl₂	(NH₄)2SO₄	VF	VR	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
17X	42.5 ul	42.5 ul	8.5 ul	8.5 ul	3.4 ul	226.1 ul		340.0 ul

Cycling CMV fwd/tetR rev
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Ligation and Transformation of “5,6,7,8,9 pSB1C3-GBlocks”

Ligation of “GBlocks 11-12 pSB1C3”
	Vector	Gen	Buffer	Ligase	ddH₂O	Total
5	0.8 ul	2.37 ul	1.0 ul	0.5 ul	5.33 ul	10.0 ul
6	0.8 ul	4.2 ul	1.0 ul	0.5 ul	3.5 ul	10.0 ul
7	0.8 ul	2.94 ul	1.0 ul	0.5 ul	4.76 ul	10.0 ul
8	0.8 ul	4.16 ul	1.0 ul	0.5 ul	3.54 ul	10.0 ul
9	0.8 ul	1.79 ul	1.0 ul	0.5 ul	5.91 ul	10.0 ul

50ng DNA

1 vector:0.5 insert

Transfomation with TOP10.

Ligation of “GBlocks 11-12 pSB1C3”

Ligation of “GBlocks 11-12 pSB1C3”
	pSB1C3	Insert	Buffer	Ligase	ddH₂O	Total
11	0.8 ul	1.7 ul	1.0 ul	0.5 ul	6.0 ul	10.0 ul
12	0.4 ul	1.1 ul	1.0 ul	0.5 ul	7.0 ul	10.0 ul

Transformation was made.
Colony PCR of “5,6,7,8,9,T7 system – Gblocks”

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.1 ul	13.3 ul	5.0 ul	24.9 ul
58X	145.0 ul	145.0 ul	29.0 ul	29.0 ul	29.0 ul	5.8 ul	771.4 ul		1154.2 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Ligation of “GBlocks 2,5,6,7,8,9,10,12,13,15,17 pSB1C3-RFP”

Ligation of “GBlocks 11-12 pSB1C3”
	pSB1C3	Insert	Buffer	Ligase	ddH₂O	Total
2	1.4 ul	3.65 ul	1.0 ul	0.5 ul	3.45 ul	10.0 ul
5	1.4 ul	2.4 ul	1.0 ul	0.5 ul	4.7 ul	10.0 ul
6	1.4 ul	4.2 ul	1.0 ul	0.5 ul	2.9 ul	10.0 ul
7	1.4 ul	2.9 ul	1.0 ul	0.5 ul	4.2 ul	10.0 ul
8	1.4 ul	4.15 ul	1.0 ul	0.5 ul	2.95 ul	10.0 ul
9	1.4 ul	1.8 ul	1.0 ul	0.5 ul	5.3 ul	10.0 ul
10	1.4 ul	1.9 ul	1.0 ul	0.5 ul	5.2 ul	10.0 ul
12	1.4 ul	2.2 ul	1.0 ul	0.5 ul	4.9 ul	10.0 ul
13	1.4 ul	2.9 ul	1.0 ul	0.5 ul	4.2 ul	10.0 ul
15	1.4 ul	2.95 ul	1.0 ul	0.5 ul	4.15 ul	10.0 ul
17	1.4 ul	1.25 ul	1.0 ul	0.5 ul	5.75 ul	10.0 ul

Transformation was made.
Colony PCR of “pTRE-1,13,15” (06.08.2015)

Colony PCR
	MgCl₂	(NH₄)2SO₄	CMV fwd	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
20X	50.0 ul	50.0 ul	20.0 ul	20.0 ul	10.0 ul	2.0 ul	246.0 ul		400.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

GEL GÖRÜNTÜSÜ
Colony PCR of “5,6,7,9 – Gblocks”

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	0.5 ul	0.5 ul	0.5 ul	0.2 ul	13.3 ul	5.0 ul	25.0 ul
40X	100.0 ul	100.0 ul	20.0 ul	20.0 ul	20.0 ul	8.0 ul	532.0 ul		800.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “7,8,10 – Gblocks” from Masterplate

Colony PCR
	MgCl₂	(NH₄)2SO₄	T7 terminatör Rev.	T7 terminatör For.	dNTP	Tag	ddH₂O	DNA	Totalzz
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.5 ul	12.3 ul	5.0 ul	25.0 ul
26X	65.0 ul	65.0 ul	26.0 ul	26.0 ul	13.0 ul	13.0 ul	319.8 ul		527.8 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “pET45”

Digestion
	pET45 (455ng/ul)	pSB1C3-RFP (400 ng/ul)	Cut Smart Buffer	XhoI (Neb)	BamHI-HF (Neb)	EcoRI-HF (Neb)	SpeI (Neb)	ddH₂O	Total
1	-	5.0 ul	2.0 ul	-	-	1.0 ul	1.0 ul	11.0 ul	20.0 ul
2	4.0 ul	-	2.0 ul	1.0 ul	1.0 ul	-	-	12.0 ul	20.0 ul

37˚C 3.5h

Result: Positive. Gel extraction was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/9/2015 5:04:14 PM	-0.6	ng/ul	-0.011	0.005	3.41	0.68	DNA	50.00
2	pet45 x+b	biospec	8/9/2015 5:05:26 PM	106.9	ng/ul	2.138	-0.017	0.59	0.45	DNA	50.00
4	psb1c3 e+s	biospec	8/9/2015 5:06:20 PM	133.3	ng/ul	2.666	0.913	1.90	0.40	DNA	50.00

Week 8

Ligation of “PET45 – HNS”

Ligation
	Vector	Insert	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
1x	2.1 ul	1.0 ul	2.0 ul	0.5 ul	14.4 ul	20.0 ul

16˚C 2h

Digestion of “pSB1C3 – HNS”

Ligation
	Gen	BamHI	XhoI	Cut Smart Buffer	ddH₂O	Total
1x	11.5 ul	1.0 ul	1.0 ul	2.0 ul	4.5 ul	20.0 ul

37˚C 3h
Colony PCR of “pTRE #13”

Colony PCR
	MgCl₂	(NH₄)2SO₄	CMV for.	SV40 rev.	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
10X	25.0 ul	25.0 ul	10.0 ul	10.0 ul	5.0 ul	2.0 ul	123.0 ul		250.0 ul

Cycling
	95˚C	95˚C	60˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “PET45-4,5,6,7,8,9,10”

Colony PCR
	MgCl₂	(NH₄)2SO₄	T7 ter. fw	T7 ter. rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
86X	215.0 ul	215.0 ul	86.0 ul	186.0 ul	43.0 ul	17.2 ul	1075.0 ul		1720.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Bands were at the expected section. Liquid Culture was made.

Ligation of “pColA-KanR and pSB1C3-Toehold”

Ligation
	pColA-KanR (500 ng/ul)	pSb1C3-Toehold	T4 DNA Ligase Buffer (Thermo)	T4 DNA Ligase (Thermo)	ddH₂O	Total	Vector:Insert Ratios
1	2.0 ul	1.0 ul	2.0 ul	1.0 ul	14.0 ul	20.0 ul	1:0.33
2	2.0 ul	3.0 ul	2.0 ul	1.0 ul	12.0 ul	20.0 ul	1:1

22˚C 1h

Mini Prep of “pColA-3,4,5”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/11/2015 11:11:42 PM	-0.2	ng/ul	-0.003	-0.007	0.49	0.13	DNA	50.00
2	ColA-3	biospec	8/11/2015 11:13:07 PM	27.2	ng/ul	0.544	0.260	2.10	1.95	DNA	50.00
3	ColA-4	biospec	8/11/2015 11:14:38 PM	25.5	ng/ul	0.509	0.253	2.01	1.82	DNA	50.00
4	ColA-4(2)	biospec	8/11/2015 11:15:58 PM	25.8	ng/ul	0.517	0.255	2.022	1.81	DNA	50.00
5	ColA-5	biospec	8/11/2015 11:17:02 PM	44.4	ng/ul	0.887	0.449	1.98	1.76	DNA	50.00

Result: The Band of pColA were at the expected section. 2000 pb

Ligation of “#2 GBlock with pET45” (11.08.2015)

Ligation
	pET45 (100 ng/ul)	#2 GBlock	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
1x	1.0 ul	7.3 ul	2.0 ul	1.0 ul	8.7 ul	20.0 ul

22˚C - 1’40’’

Transformation was made.
Mini Prep

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/12/2015 7:38:28 PM	0.4	ng/ul	0.008	-0.001	-8.91	0.76	DNA	50.00
2	pet45 4-4	biospec	8/12/2015 7:40:21 PM	40.3	ng/ul	0.807	0.402	2.01	2.44	DNA	50.00
3	pet45 4-3	biospec	8/12/2015 7:41:10 PM	53.1	ng/ul	1.063	0.570	1.86	1.74	DNA	50.00
4	pet45 8-12	biospec	8/12/2015 7:41:55 PM	61.8	ng/ul	1.236	0.642	1.92	2.08	DNA	50.00
5	pet45 8-3	biospec	8/12/2015 7:42:37 PM	32.9	ng/ul	0.658	0.332	1.98	2.00	DNA	50.00
6	pet45 9-11	biospec	8/12/2015 7:44:03 PM	34.5	ng/ul	0.690	0.345	2.00	1.77	DNA	50.00
7	pet45 8-1	biospec	8/12/2015 7:44:54 PM	39.0	ng/ul	0.780	0.408	1.91	1.72	DNA	50.00
8	pet45 5-10	biospec	8/12/2015 7:45:49 PM	43.2	ng/ul	0.865	0.441	1.96	1.81	DNA	50.00
9	pet45 6-3	biospec	8/12/2015 7:46:42 PM	43.5	ng/ul	0.870	0.437	1.99	1.92	DNA	50.00
10	pet45 9-8	biospec	8/12/2015 7:47:23 PM	48.1	ng/ul	0.961	0.496	1.94	1.88	DNA	50.00
11	pet45 7-4	biospec	8/12/2015 7:48:06 PM	36.2	ng/ul	0.723	0.372	1.94	1.97	DNA	50.00
12	pet45 4-1	biospec	8/12/2015 7:48:50 PM	49.4	ng/ul	0.987	0.509	1.94	1.99	DNA	50.00
13	pet45 4-2	biospec	8/12/2015 7:49:43 PM	59.3	ng/ul	1.187	0.606	1.96	2.09	DNA	50.00
14	pet45 7-3	biospec	8/12/2015 7:50:33 PM	30.2	ng/ul	0.604	0.307	1.97	1.96	DNA	50.00
15	psb1c3 12	biospec	8/12/2015 7:51:18 PM	141.1	ng/ul	2.823	1.462	1.93	2.14	DNA	50.00
16	pet45 5-7	biospec	8/12/2015 7:52:04 PM	26.1	ng/ul	0.522	0.265	1.97	2.00	DNA	50.00
17	pet45 5-3	biospec	8/12/2015 7:52:49 PM	46.1	ng/ul	0.923	0.470	1.96	2.02	DNA	50.00
18	pet45 6-12	biospec	8/12/2015 7:53:36 PM	29.3	ng/ul	0.586	0.283	2.07	1.80	DNA	50.00
19	pet45 1-12	biospec	8/12/2015 7:54:25 PM	21.4	ng/ul	0.428	0.210	2.04	1.72	DNA	50.00
20	pet45 5-8	biospec	8/12/2015 7:55:08 PM	29.1	ng/ul	0.582	0.299	1.95	2.07	DNA	50.00
21	psb1c3 1	biospec	8/12/2015 7:55:51 PM	75.3	ng/ul	1.507	0.779	1.93	2.07	DNA	50.00
22	pet45 8-4	biospec	8/12/2015 7:56:33 PM	44.1	ng/ul	0.882	0.451	1.96	1.99	DNA	50.00
23	pet45 7-2	biospec	8/12/2015 7:57:16 PM	25.3	ng/ul	0.506	0.259	1.95	1.70	DNA	50.00

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/12/2015 7:17:01 PM	-0.3	ng/ul	-0.007	-0.015	0.47	0.23	DNA	50.00
2	psb1c3-4hns	biospec	8/12/2015 7:18:16 PM	61.9	ng/ul	1.237	0.652	1.90	2.17	DNA	50.00
3	pet45 10-1	biospec	8/12/2015 7:19:32 PM	46.7	ng/ul	0.934	0.486	1.92	2.00	DNA	50.00
4	pet45 10-6	biospec	8/12/2015 7:20:23 PM	52.0	ng/ul	1.040	0.549	1.89	1.88	DNA	50.00
5	pet45 10-3	biospec	8/12/2015 7:21:14 PM	51.9	ng/ul	1.037	0.536	1.94	2.10	DNA	50.00
6	pet45 9-6	biospec	8/12/2015 7:22:10 PM	37.7	ng/ul	0.755	0.389	1.94	1.99	DNA	50.00
7	pet45 10-8	biospec	8/12/2015 7:23:08 PM	85.3	ng/ul	1.705	1.002	1.70	0.93	DNA	50.00
8	psb1c3 16-trigger rna	biospec	8/12/2015 7:24:27 PM	125.7	ng/ul	2.514	1.401	1.79	1.32	DNA	50.00
9	pet45 10	biospec	8/12/2015 7:25:23 PM	84.7	ng/ul	1.694	1.025	1.65	0.76	DNA	50.00
10	pet45 6-6	biospec	8/12/2015 7:26:23 PM	100.3	ng/ul	2.006	1.124	1.79	1.24	DNA	50.00
11	pet45 8-2	biospec	8/12/2015 7:27:20 PM	67.5	ng/ul	1.349	0.778	1.73	0.91	DNA	50.00
12	pet45 7-1	biospec	8/12/2015 7:28:07 PM	52.5	ng/ul	1.050	0.549	1.91	1.83	DNA	50.00

Cut Check of “pET45 1,4,5,6,7,8,9,10 – BamHI/XhoI”

Ligation
	Gen (250 ng/ul)	Cut Smart Buffer	BamHI (NEB)	XhoI (NEB)	ddH₂O	Total
1	11.7 ul	2.0 ul	1.0 ul	1.0 ul	4.3 ul	20.0 ul
4	6.2 ul	2.0 ul	1.0 ul	1.0 ul	9.8 ul	20.0 ul
5	8.6 ul	2.0 ul	1.0 ul	1.0 ul	7.4 ul	20.0 ul
6	8.6 ul	2.0 ul	1.0 ul	1.0 ul	7.4 ul	20.0 ul
7	8.3 ul	2.0 ul	1.0 ul	1.0 ul	7.7 ul	20.0 ul
8	7.4 ul	2.0 ul	1.0 ul	1.0 ul	8.6 ul	20.0 ul
9	6.7 ul	2.0 ul	1.0 ul	1.0 ul	9.3 ul	20.0 ul
10	5.9 ul	2.0 ul	1.0 ul	1.0 ul	10.1 ul	20.0 ul

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/13/2015 1:31:59 AM	0.0	ng/ul	-0.001	-0.005	0.17	0.08	DNA	50.00
2	psb1c3-e+p	biospec	8/13/2015 1:32:58 AM	58.6	ng/ul	1.172	0.618	1.90	0.57	DNA	50.00

Colony PCR of “pTRE – 12,13 GBlocks”

Colony PCR
	MgCl₂	(NH₄)2SO₄	CMV fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
15X	37.5 ul	37.5 ul	15.0 ul	15.0 ul	7.5 ul	3.0 ul	184.5 ul		300.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “pColA – Toehold GFP”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pColA fw	pColA rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
26X	65.0 ul	65.0 ul	26.0 ul	26.0 ul	13.0 ul	5.2 ul	319.8 ul		520.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: 2-4, 2-8, 1-6 Bands were at the expected section.

Digestion of “pSB1C3-RFP”

Digestion
	pSB1C3-RFP (400 ng/ul)	Cut Smart Buffer	EcoRI-HF	PstI	ddH₂O	Total
1	5.0 ul	2.0 ul	1.0 ul	1.0 ul	11.0 ul	20.0 ul
2	5.0 ul	2.0 ul	1.0 ul	1.0 ul	11.0 ul	20.0 ul
3	5.0 ul	2.0 ul	1.0 ul	1.0 ul	11.0 ul	20.0 ul

37˚C – 3.5h

Gel extraction was made.
Ligation of “pSB1C3-GBlocks”

Ligation
	Digested pSB1C3	GBlocks	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
1	1.7 ul	2.0 ul	2.0 ul	1.0 ul	13.3 ul	20.0 ul

22˚C – 1.30h

Transformation with Neb10-β. Colony PCR will be made.
Colony PCR of “GBlocks – 2,5,6,7,8,9”

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
45X	112.5 ul	112.5 ul	45.0 ul	45.0 ul	22.5 ul	9.0 ul	553.5 ul		900.0 ul
55X	137.5 ul	137.5 ul	55.0 ul	55.0 ul	27.5 ul	11.0 ul	676.5 ul		1100.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Digestion/Gel Electrophoresis/Gel Extraction and Purification of “pSB1C3”

Digestion
	DNA	FD	EcoRI	PstI	ddH₂O	Total
1x	2.5 ul	2.0 ul	1.0 ul	1.0 ul	13.5 ul	20.0 ul

37˚C 1h

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/16/2015 10:45:30 PM	0.1	ng/ul	0.003	-0.017	0.17	-0.14	DNA	50.00
2	psb1c3-e+p	biospec	8/16/2015 10:47:18 PM	14.0	ng/ul	0.279	0.145	1.92	0.15	DNA	50.00

Colony PCR of “pSB1C3 7,10,12,13 and pET45 2”

Colony PCR of “pSB1C3 7,10,12,13”
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
6X	15.0 ul	15.0 ul	6.0 ul	6.0 ul	3.0 ul	1.2 ul	73.8 ul		120.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/16/2015 8:54:05 PM	-0.2	ng/ul	-0.004	-0.017	0.25	0.12	DNA	50.00
2	psb1c3 13-15	biospec	8/16/2015 8:55:29 PM	125.2	ng/ul	2.505	1.339	1.87	2.01	DNA	50.00
3	psb1c3 15-19	biospec	8/16/2015 8:56:24 PM	93.5	ng/ul	1.871	0.999	1.87	1.94	DNA	50.00
4	psb1c3 7-16	biospec	8/16/2015 8:57:33 PM	149.4	ng/ul	2.988	1.575	1.90	2.14	DNA	50.00
5	psb1c3 10-16	biospec	8/16/2015 8:58:18 PM	138.0	ng/ul	2.760	1.469	1.88	2.13	DNA	50.00
6	psb1c3 10-17	biospec	8/16/2015 8:59:03 PM	185.5	ng/ul	3.710	1.994	1.86	1.86	DNA	50.00
7	psb1c3 7-11	biospec	8/16/2015 8:00:54 PM	73.8	ng/ul	1.475	0.843	1.75	1.08	DNA	50.00
8	psb1c3 13-14	biospec	8/16/2015 8:01:53 PM	178.7	ng/ul	3.575	1.922	1.86	1.87	DNA	50.00
9	psb1c3 7-20	biospec	8/16/2015 8:02:54 PM	73.6	ng/ul	1.472	0.774	1.90	2.05	DNA	50.00
10	pcola toe 2-4	biospec	8/16/2015 8:03:57 PM	40.1	ng/ul	0.801	0.441	1.82	1.13	DNA	50.00
11	pcola toe 2-8	biospec	8/16/2015 8:05:31 PM	48.7	ng/ul	0.974	0.503	1.94	1.61	DNA	50.00
12	pcola toe 1-6	biospec	8/16/2015 8:06:09 PM	54.9	ng/ul	1.098	0.570	1.93	1.62	DNA	50.00
13	pcola blunt 1	biospec	8/16/2015 8:06:52 PM	23.9	ng/ul	0.479	0.244	1.96	1.24	DNA	50.00
14	pcola blunt 6	biospec	8/16/2015 8:07:30 PM	31.1	ng/ul	0.623	0.314	1.98	1.67	DNA	50.00

Week 8

Ligation of “pColA and pSB1C3 #9 (Damp-Pex)” </html>

Ligation
	pColA (Vector 50 ng/ul)	Insert (Damp-Pex)	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total	Vector:Insert Ratio
9.1	2.0 ul	1.0 ul	2.0 ul	1.0 ul	14.0 ul	20.0 ul	1:0.33
9.2	2.0 ul	2.8 ul	2.0 ul	1.0 ul	12.2 ul	20.0 ul	1:1

Miniprep of “pTet-off DH5α /Top10/NEB5fα/NEB10β” / {| border="1" class="wikitable" !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor |- |1||blank||biospec||8/18/2015 3:04:27 PM||0.4||ng/ul||0.008||-0.008||-1.01||1.01||DNA||50.00 |- |2||top10||biospec||8/18/2015 3:05:19 PM||258.5||ng/ul||5.169||2.753||1.88||2.11||DNA||50.00 |- |3||neb5a||biospec||8/18/2015 3:06:25 PM||30.6||ng/ul||0.612||0.324||1.89||1.34||DNA||50.00 |- |4||neb5a||biospec||8/18/2015 3:07:30 PM||33.4||ng/ul||0.668||0.350||1.91||1.27||DNA||50.00 |- |5||neb10beta||biospec||8/18/2015 3:08:22 PM||214.6||ng/ul||4.292||2.264||1.90||2.19||DNA||50.00 |}
Colony PCR of “pET45 #2.8”

Colony PCR
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
25X	62.5 ul	62.5 ul	25.0 ul	25.0 ul	12.5 ul	5.0 ul	307.5 ul		500.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “pSB1C3 17,6,8”

Colony PCR of “pSB1C3 17,6,8”
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
32X	80.0 ul	80.0 ul	32.0 ul	32.0 ul	16.0 ul	6.4 ul	393.6 ul		640.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: 6: Liquid Culture was made.

8: sequencing will be done

17: Colony PCR will be repeated.

Colony PCR of “pColA blunt”

Colony PCR of “pColA blunt”
	MgCl₂	(NH₄)2SO₄	ColA fw	ColA rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
20X	50.0 ul	50.0 ul	20.0 ul	20.0 ul	10.0 ul	4.0 ul	246.0 ul		400.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

PCR of “Q5 DNA Polymerase for pCAG”

PCR
	Template DNA	pCAG fw	pCAG rev	Master 2x Mix	ddH₂O	Total
1x	1.0 ul	5.0 ul	5.0 ul	25.0 ul	14.0 ul	50.0 ul

Cycling
	98˚C	98˚C	70˚C	72˚C	72˚C	Cycle
Time	30’’	10’’	30’’	1’	5’	35x

Result: Bands were at the expected section. PCR clean up will be made.

Digestion of “pCAG – Clean up”

Digestion
	pCAG – Clean up (34 ng/ul)	pCAG – Clean up (61.6 ng/ul)	EcoRI-HF (NEB)	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1	7.4 ul	-	0.5 ul	0.5 ul	2.0 ul	9.6 ul	20.0 ul
2	-	4.1 ul	0.5 ul	0.5 ul	2.0 ul	12.9 ul	20.0 ul

37˚C overnight

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/19/2015 7:08:39 PM	0.0	ng/ul	0.000	0.000	27.59	-0.07	DNA	50.00
2	pcag	biospec	8/19/2015 7:10:01 PM	61.6	ng/ul	1.233	0.686	1.80	1.02	DNA	50.00

Digestion of “pSB1C3 – mLacI miR373-BS”

Digestion
	mLacI miR373-BS	EcoRI-HF (NEB)	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1	3.4 ul	0.5 ul	0.5 ul	2.0 ul	13.9 ul	20.0 ul

37˚C 2.30h

Ligation of “pSB1C3 – mLacI miR373-BS with pTRE”

Ligation
	Digested mLacI miR373-BS with pTRE	pTRE	T4 DNA Ligase Buffer	T4 DNA Ligase	Cut Smart Buffer	ddH₂O	Total
1	3.0 ul	1.0 ul	2.0 ul	1.0 ul	2.0 ul	13.0 ul	20.0 ul

22˚C 1.30h

Transformation will be made.

Colony PCR of “#6,8”

Colony PCR
	MgCl₂	(NH₄)2SO₄	ColA fw	ColA rev	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
25X	62.5 ul	62.5 ul	25.0 ul	25.0 ul	12.5 ul	5.0 ul	307.5 ul		500.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Positive. Liquid Culture was made.

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/22/2015 12:11:34 PM	0.5	ng/ul	0.010	-0.003	-3.39	-3.90	DNA	50.00
2	8-1	biospec	8/22/2015 12:12:38 PM	70.3	ng/ul	1.406	0.755	1.86	1.64	DNA	50.00
3	8-3	biospec	8/22/2015 12:13:38 PM	80.7	ng/ul	1.613	0.846	1.91	2.11	DNA	50.00
4	6-1	biospec	8/22/2015 12:14:32 PM	33.3	ng/ul	0.666	0.354	1.88	1.44	DNA	50.00

Cut Check of “#6,8”

Cut Check
	DNA (400 ng/ul)	EcoRI	PstI	Fast Digest Buffer	ddH₂O	Total
1	5.7 ul	0.5 ul	0.5 ul	2.0 ul	11.3 ul	20.0 ul
2	4.8 ul	0.5 ul	0.5 ul	2.0 ul	12.2 ul	20.0 ul
3	12.0 ul	0.5 ul	0.5 ul	2.0 ul	5.0 ul	20.0 ul

37˚C 40’

Result: positive

Colony PCR “pSB1C3 17,6,8 – pColA, Damp-Pex, pTetoff”

Mini Prep of “pSB1C3-#17”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/20/2015 5:04:31 PM	0.6	ng/ul	0.013	0.007	1.93	1.40	DNA	50.00
2	psb1c3 17-2	biospec	8/20/2015 5:05:28 PM	78.9	ng/ul	1.579	0.821	1.92	2.17	DNA	50.00
3	psb1c3 17-5	biospec	8/20/2015 5:06:18 PM	77.5	ng/ul	1.551	0.806	1.92	2.08	DNA	50.00
4	psb1c3 17-8	biospec	8/20/2015 5:07:02 PM	87.5	ng/ul	1.749	0.910	1.92	2.08	DNA	50.00
5	psb1c3 17-10	biospec	8/20/2015 5:07:47 PM	105.4	ng/ul	2.108	1.087	1.94	2.15	DNA	50.00

Digestion of “pSB1C3 T7-10 and pET45 #4-1, #5-3, #6-6, #8-15” (21.08.2015)

Digestion pET45 #4-1, #5-3, #6-6, #8-15
	DNA	BamHI-HF (NEB)	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
#4-1	10.1 ul	1.0 ul	1.0 ul	2.0 ul	5.9 ul	20.0 ul
#5-3	10.8 ul	1.0 ul	1.0 ul	2.0 ul	5.2 ul	20.0 ul
#6-6	5.0 ul	1.0 ul	1.0 ul	2.0 ul	11.0 ul	20.0 ul
#8-15	16.0 ul	1.0 ul	1.0 ul	2.0 ul	-	20.0 ul

37˚C 3h

Digestion pSB1C3 T7-10
	DNA	BamHI-HF (NEB)	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
#4-1	4.8 ul	1.0 ul	1.0 ul	2.0 ul	11.2 ul	20.0 ul

1ul rSAP / 37˚C 1h

Ligation
	Vector (pSB1C3)	Insert	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
#4	1.0 ul	1.0 ul	2.0 ul	1.0 ul	15.0 ul	20.0 ul
#5	1.0 ul	1.0 ul	2.0 ul	1.0 ul	15.0 ul	20.0 ul
#6	1.0 ul	1.0 ul	2.0 ul	1.0 ul	15.0 ul	20.0 ul
#8	1.0 ul	1.0 ul	2.0 ul	1.0 ul	15.0 ul	20.0 ul

22˚C 2h

-80 ˚C 20’’ Heat Inaktivation

Colony PCR of “pTRE - #13 mLacI-miR373 BS”

Colony PCR
	MgCl₂	(NH₄)2SO₄	CMV fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
22X	55.0 ul	55.0 ul	22.0 ul	22.0 ul	11.0 ul	4.4 ul	270.6 ul		440.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Results: negative

Mini Prep of “pSB1C3 #6-25,26”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/20/2015 10:01:33 AM	0.4	ng/ul	0.007	-0.003	-2.12	-1.13	DNA	50.00
2	psb1c3 #6-25	biospec	8/20/2015 10:02:45 AM	41.0	ng/ul	0.820	0.421	1.95	1.93	DNA	50.00
3	psb1c3 #6-26	biospec	8/20/2015 10:03:50 AM	46.0	ng/ul	0.920	0.464	1.98	1.97	DNA	50.00

Cut Check of “pSB1C3 #6-25,26”

Cut Check
	DNA	EcoRI-HF	PstI-HF	Cut Smart Buffer	ddH₂O	Total
#6-25	6.1 ul	0.5 ul	0.5 ul	2.0 ul	10.9 ul	20.0 ul
#6-26	5.5 ul	0.5 ul	0.5 ul	2.0 ul	11.5 ul	20.0 ul

37˚C 3h

Result: negative

Digestion of “pTRE #12”

Digestion
	pTRE #12 (5000 ng/ul)	EcoRI-HF	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1x	16.0 ul	0.5 ul	0.5 ul	2.0 ul	1.0 ul	20.0 ul

37˚C 3h

Result: negative

Digestion of “Damp-Pex pSB1C3”

Digestion pSB1C3 T7-10
	DNA (500 ng/ul)	NotI	Cut Smart Buffer	ddH₂O	Total
#9-5	3.42 ul	1.0 ul	2.0 ul	13.58 ul	20.0 ul
#9-10	3.56 ul	1.0 ul	2.0 ul	13.44 ul	20.0 ul

37˚C 3h

Ligation of “Damp-Pex pColA”

Ligation
	pColA (100 ng/ul)	Insert (36 ng/ul)	T4 DNA Ligase Buffer	T4 DNA Ligase	ddH₂O	Total
1x	2.8 ul	5.41 ul	2.0 ul	1.0 ul	15.0 ul	20.0 ul

22˚C 1.30h

Transformation with NEB5α.

Colony PCR of “Damp-Pex + pColA”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pColA fw	pColA rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
26X	65.0 ul	65.0 ul	26.0 ul	26.0 ul	13.0 ul	5.2 ul	319.8 ul		520.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: #5-4, #5-9 Liquid Culture was made.

Mini Prep of “pTetoff #14-4,5,8”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/22/2015 11:01:09 AM	0.1	ng/ul	0.002	-0.008	-0.23	-0.10	DNA	50.00
2	ptetoff 14-4	biospec	8/22/2015 11:02:05 AM	159.6	ng/ul	3.193	1.678	1.90	2.00	DNA	50.00
3	ptetoff 14-5	biospec	8/22/2015 11:03:21 AM	141.1	ng/ul	2.822	1.466	1.93	1.97	DNA	50.00
4	ptetoff 14-8	biospec	8/22/2015 11:04:14 AM	367.5	ng/ul	7.350	3.969	1.85	2.11	DNA	50.00

Cut Check I
	DNA (250 ng/ul)	SalI (FD)	HindIII (FD)	Fast Digest Buffer	ddH₂O	Total
#14-4	1.6 ul	0.5 ul	0.5 ul	2.0 ul	15.4 ul	20.0 ul
#14-5	1.8 ul	0.5 ul	0.5 ul	2.0 ul	15.2 ul	20.0 ul
#14-8	0.7 ul	0.5 ul	0.5 ul	2.0 ul	16.3 ul	20.0 ul

37˚C 2h

Result: negative

Cut Check II
	DNA (250 ng/ul)	SalI (FD)	NotI (FD)	Fast Digest Buffer	ddH₂O	Total
#14-4	1.6 ul	0.5 ul	0.5 ul	2.0 ul	15.4 ul	20.0 ul
#14-5	1.8 ul	0.5 ul	0.5 ul	2.0 ul	15.2 ul	20.0 ul
#14-8	0.7 ul	0.5 ul	0.5 ul	2.0 ul	16.3 ul	20.0 ul

37˚C 30’’

Result: negative

Colony PCR of “pSB1C3 – T7 #4,5,6,8”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
50x	125.0 ul	125.0 ul	50.0 ul	50.0 ul	25.0 ul	10.0 ul	615.0 ul		1000.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

</div>

     <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('8');">Week 8<img              
          src="  " id="8" class="tiger"></a>

Digestion of “pTRE #12-2” </html>

Digestion
	pTRE #12-2 (2000 ng/ul)	EcoRI-HF	XhoI-NEB	Cut Smart Buffer	ddH₂O	Total
1x	6.4 ul	0.5 ul	0.5 ul	2.0 ul	10.6 ul	20.0 ul

37˚C 2h

Result: Bands were at the expected section. Gel Extraction was made.

Mini Prep

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/24/2015 1:28:49 AM	0.0	ng/ul	0.001	-0.013	-0.07	-0.07	DNA	50.00
2	ptre gel	biospec	8/24/2015 1:30:29 AM	15.3	ng/ul	0.306	0.164	1.87	0.65	DNA	50.00

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/24/2015 1:26:27 AM	0.7	ng/ul	0.015	0.001	18.47	0.53	DNA	50.00
2	ptre	biospec	8/24/2015 1:29:38 AM	13.7	ng/ul	0.275	0.145	1.90	0.10	DNA	50.00

Digestion of “TEV-Protease pET45/pSB1C3 T7/pColA

Digestion
	DNA (500 ng/ul)	BamHI-HF	XhoI-HF	Cut Smart Buffer	ddH₂O	Total
1x	5.86 ul	0.5 ul	0.5 ul	2.0 ul	11.14 ul	20.0 ul

37˚C 3h

Ligation of “pCAGop with pTRE #12-2”

Ligation
	pCAG (18.38 ng/ul)	pTRE #12-2 (100 ng/ul)	T4 DNA Ligase	T4 DNA Ligase Buffer	Cut Smart Buffer	ddH₂O	Total
1x	0.6 ul	6.6 ul	1.0 ul	2.0 ul	2.0 ul	9.8 ul	20.0 ul

<htm>

Transformation was made.

Cut Check “pSB1C3-T7 #4,5,6,8” </html>

Cut Check
	DNA (300 ng/ul)	EcoRI (FD)	PstI (FD)	Fast Digest Buffer	ddH₂O	Total
1x	3.5 ul	1.0 ul	1.0 ul	2.0 ul	12.5 ul	20.0 ul

30’ digestion

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/25/2015 1:26:12 PM	0.8	ng/ul	0.016	-0.003	-5.85	2.25	DNA	50.00
2	#9-5-4	biospec	8/25/2015 1:27:29 PM	59.1	ng/ul	1.182	0.603	1.96	2.25	DNA	50.00
3	#9-5-9	biospec	8/25/2015 1:28:30 PM	37.9	ng/ul	0.758	0.375	2.02	2.19	DNA	50.00

Colony PCR of “pTRE #13” {| border="1" class="wikitable" !Colony PCR |- |||MgCl₂||(NH₄)2SO₄||CMV fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total |- |1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul |- |7x||17.5 ul||17.5 ul||7.0 ul||7.0 ul||3.5 ul||1.4 ul||86.1 ul||||140.0 ul |} {| border="1" class="wikitable" !Cycling |- |||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle |- |Time||5’||30’’||30’’||1.5’||5’||35x |}
Colony PCR of “pCAG-DsRed”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
14x	35.0 ul	35.0 ul	14.0 ul	14.0 ul	7.0 ul	2.8 ul	172.2 ul		280.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Bands weren’t at the expected section.

Cut Check of „pSB1C3 – TlpB“

Cut Check
	DNA (250 ng/ul)	EcoRI (FD)	Fast Digest Buffer	ddH₂O	Total
#8-1	3.6 ul	0.5 ul	2.0 ul	13.9 ul	20.0 ul
#8-3	3.1 ul	0.5 ul	2.0 ul	14.4 ul	20.0 ul

7˚C 35’

The colonies will be made glycerol stock.

Ligation of “Damp-Pex”

Ligation
	DNA (500 ng/ul)	NotI	Cut Smart Buffer	ddH₂O	Total
#9-5	3.78 ul	1.0 ul	2.0 ul	13.22 ul	20.0 ul
#9-10	3.87 ul	1.0 ul	2.0 ul	13.13 ul	20.0 ul

37˚C 3h

Ligation
	ColA (100 ng/ul)	Insert (36 ng/ul)	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
#9-5	10.0 ul	14.4 ul	1.0 ul	3.0 ul	1.6 ul	30.0 ul

22˚C 1.5h

Transformation was made.
Colony PCR of “pCAGop-DsRed”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
10x	25.0 ul	25.0 ul	10.0 ul	10.0 ul	5.0 ul	2.0 ul	123.0 ul		200.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: 2 colonie will be made liquid culture and streak plate. Ligation and transformation will be repeated.

Mini Prep of “pTRE #13-3,5”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/26/2015 4:55:28 PM	0.1	ng/ul	0.003	-0.020	-0.13	-0.13	DNA	50.00
2	ptre 13-3	biospec	8/26/2015 4:56:47 PM	77.9	ng/ul	1.558	0.772	2.02	1.67	DNA	50.00
3	ptre 13-5	biospec	8/26/2015 4:58:06 PM	76.0	ng/ul	1.520	0.776	1.96	1.48	DNA	50.00

Colony PCR of “pColA – Damp-Pex, pSB1C3 – TEV

Colony PCR “pColA – Damp-Pex”
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
10x	25.0 ul	25.0 ul	10.0 ul	10.0 ul	5.0 ul	2.0 ul	123.0 ul		200.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Colony PCR “pSB1C3 – TEV Protease”

Colony PCR “pSB1C3 – TEV Protease”
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
10x	25.0 ul	25.0 ul	10.0 ul	10.0 ul	5.0 ul	2.0 ul	123.0 ul		200.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR “pSB1C3 – TEV Protease” – Repeat

Colony PCR “pSB1C3 – TEV Protease”
	MgCl₂	(NH₄)2SO₄	VR	VF	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
15x	37.5 ul	37.5 ul	15.0 ul	15.0 ul	7.5 ul	3.0 ul	184.5 ul		300.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “pTRE – Luc #14”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	pTRE Luc rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
14x	35.0 ul	35.0 ul	14.0 ul	14.0 ul	7.0 ul	2.8 ul	172.2 ul		280.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Bands weren’t at the expected section.

Gel Extraction of “Damp-Pex”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/27/2015 9:39:17 PM	1.1	ng/ul	0.022	0.009	2.36	1.00	DNA	50.00
2	damp-pex	biospec	8/27/2015 9:40:04 PM	8.2	ng/ul	0.164	0.090	1.82	0.05	DNA	50.00

Colony PCR of “pCAGop-DsRed #12”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
14x	35.0 ul	35.0 ul	14.0 ul	14.0 ul	7.0 ul	2.8 ul	172.2 ul		280.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Negative.

Ligation of “pCAGop-DsRed”

Ligation
	pCAG (18.38 ng/ul)	pTRE #12 (100 ng/ul)	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
1x	0.3 ul	6.6 ul	1.0 ul	2.0 ul	10.1 ul	20.0 ul

22˚C 1.30h

Transformation was made.

Colony PCR of „pSB1C3-T7 #5“

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
8x	20.0 ul	20.0 ul	8.0 ul	8.0 ul	4.0 ul	1.6 ul	98.4 ul		160.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: #1-1 Liquid Culture was made.

Digestion of “pSB1C3-T7 TEV Protease (17. and 18. Colony)”

Digestion
	DNA (500 ng/ul)	NotI-HF	Cut Smart Buffer	ddH₂O	Total
17	6.0 ul	0.5 ul	2.0 ul	11.5 ul	20.0 ul
18	13.0 ul	0.5 ul	2.0 ul	4.5 ul	20.0 ul

37˚C 3h

65˚C 20’’ Heat Inactivation

Result: negative

Digestion of “pColA”

Digestion
	pColA (300 ng/ul)	NotI	Buffer	ddH₂O	Total
1x	11.76 ul	0.5 ul	2.0 ul	5.74 ul	20.0 ul

37˚C 3h

1.2 ul rSAP

37˚C 1h

20’’ Heat Inactivation

Colony PCR of “pCAGop-DsRed #12-2. Colony streak”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
12x	30.0 ul	30.0 ul	12.0 ul	12.0 ul	6.0 ul	2.4 ul	147.6 ul		240.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Negative

Cut Check of „pSB1C3-T7 #5-31“

Cut Check
	DNA	EcoRI (FD)	PstI (FD)	Fast Digest Buffer	ddH₂O	Total
1x	3.0 ul	1.0 ul	1.0 ul	2.0 ul	13.0 ul	20.0 ul

Digestion of “pSB1C3 #9”

Digestion
	DNA (500 ng/ul)	NotI	Cut Smart Buffer	ddH₂O	Total
1x	3.0 ul	1.0 ul	2.0 ul	14.0 ul	20.0 ul

3h was digested

Result: #9-5 Bands were at the expected section

Ligation of “pColA #9”

Ligation
	pColA	#9	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
1x	7.5 ul	9.2 ul	1.0 ul	2.0 ul	0.3 ul	20.0 ul

2h was ligasted

Mini Prep of “pCAG-DsRed #12”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/28/2015 7:23:31 PM	0.5	ng/ul	0.010	-0.006	-1.58	-1.46	DNA	50.00
2	pcag op-dsred	biospec	8/28/2015 7:24:38 PM	92.3	ng/ul	1.846	1.105	1.67	0.79	DNA	50.00
3	pcag op-dsred	biospec	8/28/2015 7:26:20 PM	67.4	ng/ul	1.348	0.702	1.92	1.35	DNA	50.00

Cut Check “pCAGop-DsRed #12”

Cut Check
	DNA	EcoRI-HF	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1x	3.7 ul	0.5 ul	0.5 ul	2.0 ul	13.3 ul	20.0 ul

Result: negative

Cut Check “pCAGop-DsRed #12” - Repeat

Cut Check
	DNA	EcoRI-HF	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1x	3.7 ul	0.5 ul	0.5 ul	2.0 ul	13.3 ul	20.0 ul

Result: negative

Colony PCR of „pTEToff and pTEToff N term“ (28.08.2015)

Colony PCR
	MgCl₂	(NH₄)2SO₄	CMV rv	pTRE Luc fw	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
26x	65.0 ul	65.0 ul	26.0 ul	26.0 ul	13.0 ul	5.2 ul	319.8 ul		520.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: positive

Mini Prep of “pSB1C3-T7 TEV Protease”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/28/2015 5:55:09 PM	0.0	ng/ul	-0.001	-0.010	0.10	-1.29	DNA	50.00
2	tev psb1c3-t7/17	biospec	8/28/2015 5:56:45 PM	81.8	ng/ul	1.637	0.848	1.93	2.08	DNA	50.00
3	tev psb1c3-t7/18	biospec	8/28/2015 5:59:01 PM	38.5	ng/ul	0.771	0.380	2.03	2.03	DNA	50.00

Mini Prep of “pSB1C3-T7 TEV Protease”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/29/2015 8:08:11 PM	-0.8	ng/ul	-0.016	-0.019	0.83	0.68	DNA	50.00
2	psb1c3-t7/tev17	biospec	8/29/2015 8:09:26 PM	135.4	ng/ul	2.709	1.355	2.00	1.68	DNA	50.00
3	psb1c3-t7/tev18	biospec	8/29/2015 8:11:06 PM	229.1	ng/ul	4.581	2.193	2.09	2.40	DNA	50.00

Mini Prep of “pCAGop-DsRed #1-1”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/30/2015 11:05:33 AM	0.2	ng/ul	0.003	-0.012	-0.25	-0.27	DNA	50.00
2	pcag op-dsred	biospec	8/30/2015 11:07:31 AM	79.8	ng/ul	1.595	0.823	1.94	1.72	DNA	50.00

Cut Check of “pCAGop-DsRed #1-1”

Cut Check
	pCAGop-DsRed (250 ng/ul)	EcoRI-HF	XhoI (NEB)	Cut Smart Buffer	ddH₂O	Total
1x	3.2 ul	0.5 ul	0.5 ul	2.0 ul	13.8 ul	20.0 ul

</html>

37˚C 3h

Result: negative

Digestion of “pSB1C3-T7 TEV Protease” </html>

Digestion
	Insert	NotI	Cut Smart Buffer	ddH₂O	Total
17	3.7 ul	0.25 ul	2.0 ul	14.05 ul	20.0 ul
18	2.2 ul	0.25 ul	2.0 ul	15.55 ul	20.0 ul

37˚C 3h

Result: Bands were at the expected section. Gel extraction was made.

Ligation of “pSB1C3-T7 TEV Protease”

Ligation
	Vector (60 ng/ul)	Insert (29.11 ng/ul)	T4 DNA Buffer	T4 DNA Buffer Ligase	ddH₂O	Total
1x	7.0 ul	8.7 ul	2.0 ul	1.0 ul	1.3 ul	20.0 ul

22˚C 1.5h

Transformation was made.

Gel Extraction

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	8/30/2015 5:28:51 PM	0.0	ng/ul	-0.001	-0.005	0.15	0.03	DNA	50.00
2	psb1c3-t7	biospec	8/30/2015 5:28:05 PM	5.6	ng/ul	0.113	0.061	1.85	0.17	DNA	50.00

Colony PCR of “pColA – TEV”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pColA fw	pColA rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
16x	40.0 ul	40.0 ul	16.0 ul	16.0 ul	8.0 ul	3.2 ul	196.8 ul		320.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Colony PCR of “pColA – TEV” – Repeat

Colony PCR
	MgCl₂	(NH₄)2SO₄	pColA fw	pColA rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
22x	55.0 ul	55.0 ul	22.0 ul	22.0 ul	11.0 ul	3.2 ul	270.6 ul		440.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “PsicA for pSB1C3 and invF-sicA for ColA” (31.08.2015)

Digestion of “PsicA and invF”
	DNA	EcoRI-HF	PstI	XbaI	SpeI	2.1 Buffer	Cut Smart Buffer	ddH₂O	Total
invF-sicA	10.0 ul	-	-	1.0 ul	1.0 ul	-	2.0 ul	6.0 ul	20.0 ul
PsicA	10.0 ul	1.0 ul	1.0 ul	-	-	2.0 ul	-	6.0 ul	20.0 ul

37˚C 10h

82˚C 20’ Heat Inactivation

Digestion of “pSB1C3-RFP and pColA-NotI”
	DNA	EcoRI (FD)	PstI (FD)	XbaI (FD)	SpeI (FD)	Fast Digest Buffer	ddH₂O	Total
pSB1C3-RFP (1000 ng/ul)	2.5 ul	1.0 ul	1.0 ul	-	-	2.0 ul	13.5 ul	20.0 ul
pColA-NotI (500 ng/ul)	5.0 ul	-	-	1.0 ul	1.0 ul	2.0 ul	11.0 ul	20.0 ul

September

02.09.2015 Wiki meetings continue, we are making decisions together. 06.09.2015 What will we be wearing at the Giant Jamboree? Thinking about how to design our T-shirts. 08.09.2015 Team pictures mustn’t be left ends. 11.09.2015 We taught our little friends synthetic biology. Those kids were really funny when they came first, they were covering their faces because they were scared of being contaminated. 13.09.2015 Coloring our drawings is complete. They are better than original now. We still have wiki meetings, there are only 5 days to wiki-freeze!

Week 1, 01.09.-06.09.

Ligation of “ColA and pSB1C3”

Ligation
	Vector (100 ng/ul)	invF-sicA	psicA	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
ColA	8.5 ul	17.5 ul	-	1.0 ul	2.0 ul	-	30.0 ul
pSB1C3	9.44 ul	-	13.55 ul	1.0 ul	2.0 ul	3.0 ul	30.0 ul

22˚C 2h

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/1/2015 4:10:17 AM	0.3	ng/ul	0.006	-0.007	-0.88	-0.78	DNA	50.00
2	colA ext	biospec	9/1/2015 4:11:28 AM	11.7	ng/ul	0.235	0.132	1.78	0.08	DNA	50.00
3	cola clean-up	biospec	9/1/2015 4:12:56 AM	7.2	ng/ul	0.143	0.078	1.84	0.06	DNA	50.00
4	psb1c3 ext	biospec	9/1/2015 4:14:40 AM	10.6	ng/ul	0.213	0.113	1.88	0.12	DNA	50.00

Transformation will be made.

Ligation of “pCAGop-DsRed”

Ligation
	pCAG	pTRE #12	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
1x	0.3 ul	4.0 ul	1.0 ul	1.0 ul	13.7 ul	20.0 ul

Transformation with BL21.

Digestion of “pSB1C3-T7 TEV and pColA

Digestion
	DNA	XhoI-HF	SpeI-HF	Cut Smart Buffer	RNAse	ddH₂O	Total
17 (Hand Made Solution)	10.0 ul	0.25 ul	0.25 ul	2.0 ul	0.2 ul	7.3 ul	20.0 ul
18 (Hand Made Solution)	10.0 ul	0.25 ul	0.25 ul	2.0 ul	0.2 ul	7.3 ul	20.0 ul
17 (Midi Prep Solution)	10.0 ul	0.25 ul	0.25 ul	2.0 ul	-	7.5 ul	20.0 ul
18 (Midi Prep Solution)	10.0 ul	0.25 ul	0.25 ul	2.0 ul	-	7.5 ul	20.0 ul
pColA (1000 ng/ul)	9.0 ul	0.5 ul	0.5 ul	2.0 ul	-	8.0 ul

37˚C 3h

80˚C 20’ Heat Inactivation

Cut Check was made.

Result: pColA Bands were at the expected section. Midi Prep Solution is better.

Colony PCR of “pCAGop-DsRed and pCMV-lacO”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
16x	40.0 ul	40.0 ul	16.0 ul	16.0 ul	8.0 ul	3.2 ul	196.8 ul		320.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative. It will be repeated.

Colony PCR of “invF-sicA and PsicA” (02.09.2015)

Result: PsicA: 1, 2, 6, 8, 9, 10, 11 Liquid Culture will be made.

Digestion of “invF-sicA for pSB1C3 and ColA”

DNA 10.0 ul + rSAP 1.0 ul / 37˚C 1h / 80˚C 20’

Digestion
	DNA	EcoRI-HF	PstI	XbaI	SpeI	2.1 Buffer	Cut Smart Buffer	ddH₂O	Total
pSB1C3	10.0 ul	0.4 ul	0.4 ul	-	-	2.0 ul	-	7.2 ul	20.0 ul
ColA	10.0 ul	-	-	0.4 ul	0.4 ul	-	2.0 ul	7.2 ul	20.0 ul

37˚C overnight

Mini Prep of “PsicA – pSB1C3”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/3/2015 8:34:29 PM	0.8	ng/ul	0.016	0.000	116.17	0.85	DNA	50.00
2	psb1c3-psica 1	biospec	9/3/2015 8:35:32 PM	130.5	ng/ul	2.610	1.370	1.91	2.04	DNA	50.00
3	psb1c3-psica 2	biospec	9/3/2015 8:36:34 PM	140.9	ng/ul	2.818	1.457	1.93	2.16	DNA	50.00
4	psb1c3-psica 6	biospec	9/3/2015 8:37:28 PM	178.5	ng/ul	3.569	1.864	1.92	2.20	DNA	50.00
5	psb1c3-psica 8	biospec	9/3/2015 8:38:24 PM	98.7	ng/ul	1.974	1.021	1.93	2.13	DNA	50.00
6	psb1c3-psica 9	biospec	9/3/2015 8:39:21 PM	237.0	ng/ul	4.741	2.476	1.91	2.13	DNA	50.00
7	psb1c3-psica 10	biospec	9/3/2015 8:40:35 PM	109.0	ng/ul	2.181	1.127	1.94	2.05	DNA	50.00
8		biospec	9/3/2015 8:41:51 PM	109.5	ng/ul	2.189	1.134	1.93	1.97	DNA	50.00
9	blank	biospec	9/3/2015 8:43:10 PM	1.3	ng/ul	0.025	0.003	9.26	0.73	DNA	50.00
10	psb1c3-psica 11	biospec	9/3/2015 8:44:14 PM	50.4	ng/ul	1.008	0.518	1.95	1.97	DNA	50.00

Cut Check of “PsicA – pSB1C3”

Cut Check
	DNA	EcoRI (FD)	PstI (FD)	Fast Digest Buffer	ddH₂O	Total
1	1.9 ul	0.35 ul	0.35 ul	2.0 ul	15.4 ul	20.0 ul
2	1.8 ul	0.35 ul	0.35 ul	2.0 ul	15.5 ul	20.0 ul
6	1.4 ul	0.35 ul	0.35 ul	2.0 ul	15.9 ul	20.0 ul
8	2.5 ul	0.35 ul	0.35 ul	2.0 ul	14.8 ul	20.0 ul
9	1.1 ul	0.35 ul	0.35 ul	2.0 ul	16.2 ul	20.0 ul
10	2.3 ul	0.35 ul	0.35 ul	2.0 ul	15.0 ul	20.0 ul
11	5.0 ul	0.35 ul	0.35 ul	2.0 ul	12.3 ul	20.0 ul

37˚C 35’

Ligation of “invF and pSB1C3/pColA”

Ligation
	Vector (100 ng/ul)	invF/sicA	invF/sicA	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
ColA (-)	11.6 ul	-	-	1.0 ul	3.2 ul	16.6 ul	32.2 ul
ColA (+)	11.6 ul	14.40 ul	-	3.2 ul	3.4 ul	2.2 ul	34.8 ul
pSB1C3	9.4 ul	-	14.40 ul	1.0 ul	3.0 ul	2.2 ul	30.0 ul

RT 1h

Transformation will be made.

Colony PCR of “pCMV-Lacop-DsRed and pCAGop-DsRed”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
15x	37.5 ul	37.5 ul	15.0 ul	15.0 ul	7.5 ul	3.0 ul	184.5 ul		300.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: Bands were at the expected section. Liquid Culture was made.

Mini Prep of „pCMV-Lacop-DsRed and pCAGop-DsRed“

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/5/2015 10:42:13 AM	-0.1	ng/ul	-0.003	-0.015	0.18	0.15	DNA	50.00
2	pcmv-lacop-dsred 1	biospec	9/5/2015 10:44:11 AM	68.4	ng/ul	1.369	0.690	1.98	1.76	DNA	50.00
3	pcmv-lacop-dsred 2	biospec	9/5/2015 10:45:12 AM	51.2	ng/ul	1.024	0.499	2.05	1.77	DNA	50.00
4	pcmv-lacop-dsred 3	biospec	9/5/2015 10:46:09 AM	78.5	ng/ul	1.570	0.793	1.98	1.98	DNA	50.00
5	pcmv-lacop-dsred 4	biospec	9/5/2015 10:47:04 AM	47.7	ng/ul	0.954	0.460	2.07	1.95	DNA	50.00
6	Pcagop-dsred 1	biospec	9/5/2015 10:48:08 AM	499.6	ng/ul	9.991	5.290	1.89	2.20	DNA	50.00

Cut Check of „pCMV-Lacop-DsRed and pCAGop-DsRed“

Cut Check
	DNA	BamHI	XhoI	EcoRI	Cut Smart Buffer	ddH₂O	Total
1	4.4 ul	0.5 ul	0.5 ul	-	2.0 ul	12.6 ul	20.0 ul
2	5.9 ul	0.5 ul	0.5 ul	-	2.0 ul	11.1 ul	20.0 ul
3	3.9 ul	0.5 ul	0.5 ul	-	2.0 ul	13.1 ul	20.0 ul
4	6.3 ul	0.5 ul	0.5 ul	-	2.0 ul	10.7 ul	20.0 ul
pCAGop-DsRed	1.0 ul	0.5 ul	-	0.5 ul	2.0 ul
	16.0 ul	20.0 ul

37˚C 3h

Result: 1-2-3-4 is positive.

Week 9

Cut Check of “invF and sicA”

Cut Check
	DNA (250 ng/ul)	EcoRI (FD)	PstI (FD)	Fast Digest Buffer	ddH₂O	Total
1x	5.0 ul	0.5 ul	0.5 ul	2.0 ul	12.0 ul	20.0 ul

37˚C 35’

Mini Prep

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/7/2015 6:34:56 PM	-0.1	ng/ul	-0.003	-0.005	0.60	0.11	DNA	50.00
2	#18-11	biospec	9/7/2015 6:36:20 PM	79.8	ng/ul	1.597	0.843	1.89	1.93	DNA	50.00
3	#18-2	biospec	9/7/2015 6:37:48 PM	74.9	ng/ul	1.497	0.787	1.90	2.01	DNA	50.00
4	elution blank	biospec	9/7/2015 6:39:44 PM	0.3	ng/ul	0.005	-0.004	-1.51	0.68	DNA	50.00
5	#18-5 elution	biospec	9/7/2015 6:40:49 PM	57.7	ng/ul	1.154	0.604	1.91	1.91	DNA	50.00

Digestion of “#18-2,5”

Digestion
	DNA (500 ng/ul)	XbaI	SpeI-HF	Cut Smart Buffer	ddH₂O	Total
#18-2	6.66 ul	0.4 ul	0.4 ul	2.0 ul	8.54 ul	20.0 ul
#18-5	8.66 ul	0.4 ul	0.4 ul	2.0 ul	10.54 ul	20.0 u

37˚C 40’

Ligation

Ligation
	pSB1C3-invF (175 ng/ul)	ColA (100 ng/ul)	T4 DNA Ligase	T4 DNA Ligase Buffer	ddH₂O	Total
1	7.0 ul	-	1.0 ul	2.0 ul	9.17 ul	20.0 ul
2	-	7.0 ul	1.0 ul	2.0 ul	5.0 ul	20.0 ul

Transformation will be made.

Mini Prep of “pSB1C3 – TEV”

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/8/2015 10:39:08 AM	-0.1	ng/ul	-0.003	-0.009	0.30	0.13	DNA	50.00
2	psb1c3-tev 17	biospec	9/8/2015 10:40:15 AM	125.5	ng/ul	2.510	1.331	1.89	2.16	DNA	50.00
3	psb1c3-tev 18	biospec	9/8/2015 10:42:45 AM	111.9	ng/ul	2.238	1.195	1.87	2.14	DNA	50.00

Digestion of “pSB1C3 – TEV 17/18 and pColA-Toehold”

Digestion of “pSB1C3 – TEV 17/18”
	DNA (1000 ng/ul)	XbaI (FD)	SpeI (FD)	Fast Digest Buffer	ddH₂O	Total
17	8.0 ul	1.0 ul	1.0 ul	2.0 ul	8.0 ul	20.0 ul
18	9.0 ul	1.0 ul	1.0 ul	2.0 ul	7.0 ul	20.0 ul

37˚C 1h

Digestion of “pColA-Toehold”
	DNA (1000 ng/ul)	XbeI (FD)	SpeI (FD)	Fast Digest Buffer	ddH₂O	Total
1x	16.0 ul	1.0 ul	1.0 ul	2.0 ul	-	20.0 ul

37˚C 1h

Colony PCR of “ pSB1C3-TEV 17/18”

Colony PCR
	MgCl₂	(NH₄)2SO₄	pTRE Luc fw	SV40 rv	dNTP	Tag	ddH₂O	DNA	Total
1x	2.5 ul	2.5 ul	1.0 ul	1.0 ul	0.5 ul	0.2 ul	12.3 ul	5.0 ul	25.0 ul
25x	61.5 ul	61.5 ul	25.0 ul	25.0 ul	12.5 ul	5.0 ul	307.5 ul		498.0 ul

Cycling
	95˚C	95˚C	56˚C	72˚C	72˚C	Cycle
Time	5’	30’’	30’’	1.5’	5’	35x

Result: negative

Digestion of “pColA / pSB1C3 #9 / pColA-Toehold #2-8 / pSB1C3 T7 #10-17 / #18”

Digestion of
	DNA (1000 ng/ul)	XbaI (FD)	SpeI (FD)	Cut Smart Buffer	ddH₂O	Total
pColA	4.5 ul	0.5 ul	0.5 ul	2.0 ul	12.5 ul	20.0 ul
pSB1C3 #9	1.7 ul	0.5 ul	0.5 ul	2.0 ul	15.3 ul	20.0 ul
pColA-Toehold #2-8	16.0 ul	0.5 ul	0.5 ul	2.0 ul	1.0 ul	20.0 ul
pSB1C3 T7 #10-17	3.3 ul	0.5 ul	0.5 ul	2.0 ul	13.7 ul	20.0 ul
#18	3.0 ul	0.5 ul	0.5 ul	2.0 ul	14.0 ul	20.0 ul

37˚C 3h<7p>

pColA-Toehold #2-8: 1ul rSAP / 37˚C 1h / 80˚C 20’

Result: pColA and #10 gel extraction will be made.

Gel extraction

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/10/2015 7:29:27 PM	-0.2	ng/ul	-0.003	-0.009	0.37	0.28	DNA	50.00
2	psb1c3-#9	biospec	9/10/2015 7:31:01 PM	308.0	ng/ul	6.160	3.182	1.94	2.10	DNA	50.00

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/10/2015 8:13:13 PM	0.3	ng/ul	0.005	-0.003	-1.70	-2.25	DNA	50.00
2	psb1c3 t7-10 (17)	biospec	9/10/2015 8:14:54 PM	152.2	ng/ul	3.045	1.612	1.89	2.25	DNA	50.00
3	psb1c3 t7-10 (18)	biospec	9/10/2015 8:16:02 PM	164.6	ng/ul	3.291	1.737	1.90	2.23	DNA	50.00

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/11/2015 10:05:05 PM	0.1	ng/ul	0.002	-0.017	-0.13	-0.11	DNA	50.00
2	pcola (notI)	biospec	9/11/2015 10:07:08 PM	40.4	ng/ul	0.807	0.399	2.03	1.75	DNA	50.00
3	psb1c3 #9	biospec	9/11/2015 10:08:33 PM	76.0	ng/ul	1.520	0.789	1.93	2.17	DNA	50.00
4	psb1c3-t7 #10	biospec	9/11/2015 10:09:55 PM	71.5	ng/ul	1.431	0.721	1.99	2.15	DNA	50.00
5	blank	biospec	9/11/2015 10:14:04 PM	-0.4	ng/ul	-0.007	-0.020	0.35	0.32	DNA	50.00
6	psb1c3-t7 #10	biospec	9/11/2015 10:15:01 PM	70.4	ng/ul	1.408	0.727	1.94	2.16	DNA	50.00

#	Sample ID	User name	Date and Time	Nucleic Acid Conc.	Unit	A260	A280	260/280	260/230	Sample Type	Factor
1	blank	biospec	9/11/2015 2:24:30 AM	0.6	ng/ul	0.011	0.002	4.95	1.18	DNA	50.00
2	Pcola-2	biospec	9/11/2015 2:26:25 AM	145.0	ng/ul	2.901	1.398	2.08	2.04	DNA	50.00

Difference between revisions of "Team:ATOMS-Turkiye/Extras/Notebook"

Latest revision as of 20:39, 18 September 2015

Team ATOMS-Turkiye

atoms2015@googlegroups.com

NOTEBOOK

December

January

February

March

April

May

June

July

August

September

@@ Line 1: / Line 1: @@
 {{ATOMS-Turkiye/Test}}
 <html>
+<head>
+<style>
+/* for images*/
+.img-right-notebook{
+   float:right;
+   width:300px;
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+    -ms-border-radius: 1px;
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+.img-center-notebook{
+    margin:auto;
+    left:0px;
+    right:0px;
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+    -o-border-radius: 1px;
+    border-radius: 1px;
+</style>
+</head>
 <div id="page-wrapper">
 <div class="main">
@@ Line 14: / Line 49: @@
 </html>
-<p>(9-13 December)We filled a survey to become next generation of ATOMS members.</p>
+<p>9.12.-13.12. We filled a survey to become next generation of ATOMS members.</p>
 <p>Waiting in excitement and wondering who will be the members of this year’s team.</p>
-<p>(22.12.2014)Aaaaand the results of the interviews we made are announced! Now we’re a crowded team of 25 people. Let’s see what’ll happen next.</p>
+<p>22.12. Aaaaand the results of the interviews we made are announced! Now we’re a crowded team of 25 people. Let’s see what’ll happen next.</p>
-<p>(26.12.2014)Had our first meeting and our first topic was: sponsorship.</p>
+<p>26.12. Had our first meeting and our first topic was: sponsorship.</p>
 <html>
@@ Line 39: / Line 74: @@
 </html>
-<p>We had training classes at 8-9-10 January. Now it is time to learn what iGEM wants from us.</p>
+<p>We had training classes at 08.01-10.01. January. Now it is time to learn what iGEM wants from us.</p>
-<p>(10-23 January)We made researches about previous iGEM teams, wondering who did what.</p>
+<p>10.01.-23.01. We made researches about previous iGEM teams, wondering who did what.</p>
-<p>(23-28 January)Hooray! It’s holiday! Home sweet home.</p>
+<p>23.01.-28.01. Hooray! It’s holiday! Home sweet home.</p>
 <p>It’s time to find our own project. After now, we started to have meetings every Monday and Thursday, becase we need to work a lot for finding a new project. Also, still trying to find sponsors.</p>
@@ Line 64: / Line 99: @@
 </html>
-<p>(01.02.2015)As we are ATOMS, those Sundays needed to be filled too! We made subgroups in our team and started to search previous Grand Prized-Teams. Now every group will present a team at the meetings.</p>
+<p>01.02. As we are ATOMS, those Sundays needed to be filled too! We made subgroups in our team and started to search previous Grand Prized-Teams. Now every group will present a team at the meetings.</p>
 <p>We have just built ATOMS gene library.</p>
-<p>(02.02.2015)We decided to attend some competitions due to the lack of sponsors. We attended ‘lllnesses with imagery’. Talented people is a must in a team.</p>
+<p>02.02. We decided to attend some competitions due to the lack of sponsors. We attended ‘illnesses with imagery’. Talented people is a must in a team.</p>
-<p>(13.02.2015)Drawings were done and sent. We believe wewill be successful. We are still doing researches in full swing.</p>
+<p>13.02. Drawings were done and sent. We believe we will be successful. We are still doing researches in full swing.</p>
 <html>
@@ Line 89: / Line 124: @@
 </html>
-<p>(05.03.2015)Today they filmed our school, and our laboratory so. We had so much fun while they were shooting us!</p>
+<p>05.03. Today they filmed our school, and our laboratory so. We had so much fun while they were shooting us!</p>
-<p>(11.03.2015)The art competiton’s results are just announced. Disappointment. There was not even a winner of first place. We convinced ourselves with thinking they don’t have a sense of art.</p>
+<p>11.03. The art competiton’s results are just announced. Disappointment. There was not even a winner of first place. We convinced ourselves with thinking they don’t have a sense of art.</p>
-<p>(14.03.2015)We made a biobrcik design workshop till we see the sunlight! At the late times of night, every group explained their biobrick designs. Now everyone knows what a promoter is :)</p>
+<p>14.03. We made a biobrcik design workshop till we see the sunlight! At the late times of night, every group explained their biobrick designs. Now everyone knows what a promoter is :)</p>
-<p>(17.03.2015)Lab-cleaning party! We don’t wanna be contaminated.</p>
+<p>17.03. Lab-cleaning party! We don’t wanna be contaminated.</p>
 <html>
@@ Line 115: / Line 150: @@
 </html>
-<p>05.04.2015 We bid farewell to our teammate Furkan Beştepe. He went to USA.</p>
+<p>05.04. We bid farewell to our teammate Furkan Beştepe. He went to USA.</p>
-<p>10.04.2015 Happy birthday Gülnhial! By the way your birthday cake was yummy.</p>
+<p>10.04. Happy birthday Gülnihal! By the way your birthday cake was yummy.</p>
-<p>12.04.2015 Daytime wasn’t enough so we started to have meetings in the nights! After working a lot, we deserved eating a delicious meal. Today we also started to search about Toehold.</p>
+<p>12.04. Daytime wasn’t enough so we started to have meetings in the nights! After working a lot, we deserved eating a delicious meal. Today we also started to search about Toehold.</p>
-<p>13.04.2015 We are still learnig about Toehold. It has a potential to be used.</p>
+<p>13.04. We are still learnig about Toehold. It has a potential to be used.</p>
-<p>27.04.2015 Fun at the lab.</p>
+<p>27.04. Fun at the lab.</p>
-<p>30.04.2015 ATOMS Ladieas worked on a universal blood idea till the morning.</p>
+<p>30.04. ATOMS Ladieas worked on a universal blood idea till the morning.</p>
@@ Line 145: / Line 180: @@
 </html>
-<p>03.05.2015 We must hurry up to find a project. Camp time at Asya Thermal Hotel.</p>
+<p>03.05. We must hurry up to find a project. Camp time at Asya Thermal Hotel.</p>
-<p>04.05.2015 Why there isn’t anyone in the lab?</p>
+<p>04.05. Why there isn’t anyone in the lab?</p>
-<p>06.05.2015 Finally found our project idea! ULCER AND CANCER</p>
+<p>06.05. Finally found our project idea! ULCER AND CANCER</p>
-<p>09.05.2015 Perfecting our cancer switch system.</p>
+<p>09.05. Perfecting our cancer switch system.</p>
-<p>15.05.2015 Presented our project to the dean Mehmet Gündüz and the whole genetic department of our faculty! He treated us with Turkish tea and snacks.</p>
+<p>15.05. Presented our project to the dean Mehmet Gündüz and the whole genetic department of our faculty! He treated us with Turkish tea and snacks.</p>
-<p>24.05.2015 We held a meet-up with other Turksih iGEM teams! Time to make some presentations.</p>
+<p>24.05. We held a meet-up with other Turkish iGEM teams! Time to make some presentations.</p>
 <html>
@@ Line 170: / Line 205: @@
 <h2 class="scroll">June</h2>
 <div id="content-div">
-</html>
 <p>This month we designed our genes and studied for our exams at the same time. In short it was a tough week.</p>
-<html>
-    <div style="margin-bottom:60px">
-     <section class="accordion">
-          <div>
-            <input id="june-week1" name="june-week1" type="checkbox" />
-            <label for="june-week1">Week 1, 29.06.-30.06.</label>
-            <article class="ac-small">
-</html>
+    <a href="week1" class="clickme" id="toggle" onclick="toggle_visibility('1');">Week 1<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="1" class="tiger"></a>
+<div class="box">
+</html>
 Gradient PCR of „pCAG with CMV-Enhancer FWD/Cβ-Actin REV. Primers” (29.06.2015)
 {| border="1" class="wikitable"
@@ Line 193: / Line 225: @@
 |9X||22.5 ul||22.5 ul||4.5 ul||4.5 ul||4.5 ul||1.8 ul||146.7 ul||18.0 ul||225.0 ul
 |}
+<html>
 <p>57-64˚C</p>
+<a href="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_29.06.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_29.06.jpeg" width="390" height="250"></a>
 <p>Results weren’t matching with expected results, experiment will be repeated.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
 <br>
-<p>(30.06.2015)</p>
+</html>
 {| border="1" class="wikitable"
 !Gradient PCR from pCAGGS
@@ Line 208: / Line 243: @@
 |9X||22.5 ul||22.5 ul||4.5 ul||4.5 ul||4.5 ul||1.8 ul||146.7 ul||18.0 ul||225.0 ul
 |}
+<html>
 <p>52-59˚C</p>
+<a href="https://static.igem.org/mediawiki/2015/a/af/ATOMS-Turkiye_30%2C06.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/af/ATOMS-Turkiye_30%2C06.jpeg" width="410" height="360"></a>
 <p>Results weren’t matching with expected results, experiment will be repeated.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
-<html>
+</div>
-</section>
+<h2 class="scroll">July</h2>
-</div>
+<div id="content-div">
+<p>01.07. Some preparetions were made for experiments.</p>
+<p>05.07. Today is the first day of shooting. We just learned picking costumes isn’t as easy as we think.</p>
+<p>06.07. If there is a film, then there is After Effects work to do. Good luck with this, dear teammate Şahika.</p>
+<p>08.07. We made a presentation to the pre-med students which came from USA for intership and they loved our project.</p>
+<p>21.07. Drawing pictures for wiki began. Thus we discovered our teammate Kevser’s hidden talents.</p>
+<p>22.07. Our gene blocks has just arrived. Let the experiments begin! We are all ready now.</p>
+<p>29.07. We released our first video of Virtual Hospital. Also arm’s design is finished.</p>
 </div>
+    <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('2');">Week 2<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="2" class="tiger"></a>
+<div class="box">
-<h2 class="scroll">July</h2>
+Gradient PCR of „pCAG with CAG FWD/CAG  REV. Primers/pCMV REV.” (01.07.2015)
-<div id="content-div">
 </html>
-<p>01.07.2015 Some preparetions were made for experiments.</p>
-<p>05.07.2015 Today is the first day of shooting. We just learned picking costumes isn’t as easy as we think.</p>
-<p>06.07.2015 If there is a film, then there is After Effects work to do. Good luck with this, dear teammate Şahika.</p>
-<p>08.07.2015 We made a presentation to the pre-med students which came from USA for intership and they loved our project.</p>
-<p>21.07.2015 Drawing pictures for wiki began. Thus we discovered our teammate Kevser’s hidden talents.</p>
-<p>22.07.2015 Our gene blocks has just arrived. Let the experiments begin! We are all ready now.</p>
-<p>29.07.2015 We released our first video of Virtual Hospital. Also arm’s design is finished.</p>
-<html>
-    <div style="margin-bottom:60px">
-      <section class="accordion">
-          <div>
-            <input id="july-week1" name="july-week1" type="checkbox" />
-            <label for="july-week1">Week 1, 01.07.-05.07.</label>
-            <article class="ac-small">
-</html>
-Gradient PCR of „pCAG with CAG FWD/CAG  REV. Primers/pCMV REV.” (01.07.2015)
 {| border="1" class="wikitable"
 !Gradient PCR from pCAGGS (CAG FWD – CAG REVERSE)
@@ Line 257: / Line 282: @@
 |9X||22.5 ul||22.5 ul||4.5 ul||4.5 ul||4.5 ul||1.8 ul||146.7 ul||18.0 ul||225.0 ul
 |}
+<html>
 <p>60-68˚C</p>
+<a href="https://static.igem.org/mediawiki/2015/f/f9/ATOMS-Turkiye_cag_reverse.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/f/f9/ATOMS-Turkiye_cag_reverse.jpeg" width="390" height="250"></a>
 <p>Results weren’t matching with expected results, experiment will be repeated.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Gradient PCR from pCAGGS (CAG FWD – Chicken β Aktin REVERSE)
@@ Line 272: / Line 300: @@
 |9X||22.5 ul||22.5 ul||4.5 ul||4.5 ul||4.5 ul||1.8 ul||146.7 ul||18.0 ul||225.0 ul
 |}
+<html>
 <p>60-68˚C</p>
+<a href="https://2015.igem.org/File:ATOMS-Turkiye_chicken.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://2015.igem.org/File:ATOMS-Turkiye_chicken.jpeg" width="390" height="250"></a>
 <p>Results weren’t matching with expected results, experiment will be repeated.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
 <br>
 Protocols of „Phusion Pol, and Q5 Polymerase” (02.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Phusion DNA Polymerase
@@ Line 293: / Line 324: @@
 |Time||2’||10’’||30’’||1’||5’||35x
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Q5 DNA Polymerase
@@ Line 311: / Line 344: @@
 |Time||2’||10’’||30’’||1’||5’||35x
 |}
+<html>
 <p>Defterde jel görüntüsü yok.</p>
+</div>
-<html>
+    <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('3');">Week 3<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="3" class="tiger"></a>
+<div class="box">
-</section>
+Gradient PCR of „pCAG with CAG-FWD/CAG REV. Primers and Phusion Pol.”
-    <section class="accordion">
-          <div>
-            <input id="july-week2" name="july-week2" type="checkbox" />
-            <label for="july-week2">Week 2, 05.07.-12.07.</label>
-            <article class="ac-small">
 </html>
+{| border="1" class="wikitable"
-Gradient PCR of „pCAG with CAG-FWD/CAG REV. Primers and Phusion Pol.” (07.07.2015)
-{| border="1" class="sortable"
 !Gradient PCR from pCAGGS
 |-
@@ Line 333: / Line 361: @@
 |1x||0.4 ul||2.0 ul||2.0 ul||4.0 ul||0.2 ul||10.4 ul||1.0 ul||20.0 ul
 |}
+<html>
 <p>62-64˚C</p>
+<a href="https://static.igem.org/mediawiki/2015/c/ce/ATOMS-Turkiye_07%2C07.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/c/ce/ATOMS-Turkiye_07%2C07.jpeg" width="390" height="250"></a>
 <p>Result: Gel extraction was performed. PCR (+): 680 bp</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 346: / Line 377: @@
 |2||pCAG||biospec||7/8/2015 1:58:14 AM||13.7||ng/ul||0.275||0.138||1.98||0.15||DNA||50.00
 |}
+<html>
 <br>
-Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG” (09.07.2015)
+Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG”
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pTRE” and “Promoter pCAG”
@@ Line 359: / Line 392: @@
 |2||-||10.0 ul||0.5 ul||0.5 ul||2.0 ul||7.0 ul||20.0 ul
 |}
+<html>
 <p>pTRE-delta-TRE was made after digestion.</p>
 <p>Concentration: 99.9 ng/ul</p>
@@ Line 365: / Line 399: @@
 <br>
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE   TRE“ and „Digested promoter pCAG“
@@ Line 376: / Line 412: @@
 |1:1||3.0 ul||7.0 ul||0.5 ul||2.0 ul||7.5 ul||20.0 ul||
 |}
+<html>
 <p>Ligation products were transformed into E.Coli/BL321 strain.</p>
@@ Line 381: / Line 418: @@
 <br>
-Digestion of “pTEToff and pET45 Vectors” (10.07.2015)
+Digestion of “pTEToff and pET45 Vectors”
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pTEToff  and pET45 Vectors”
@@ Line 391: / Line 430: @@
 |2||-||4.1 ul||0.5 ul||0.5 ul||-||-||2.0 ul||-||12.9 ul||20.0 ul||37˚C 2h
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/e/e6/ATOMS-Turkiye_10%2C07.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/e/e6/ATOMS-Turkiye_10%2C07.jpeg" width="250" height="350"></a>
 <p>Result: Bands were at the expected section. Gel extraction was made.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 406: / Line 446: @@
 |3||pTEToff s+h||biospec||7/10/2015 11:41:58 PM||55.5||ng/ul||1.110||0.581||1.91||0.25||DNA||50.00
 |}
+<html>
 <br>
-Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG” – Repeat (08.07.2015)
+Creating “Plasmid pCAG” via “pTRE” and “Promoter pCAG” – Repeat
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pTRE with EcoRI/XhoI”
@@ Line 419: / Line 461: @@
 |2||3.2 ul||0.5 ul||0.5 ul||2.0 ul||13,8 ul||20.0 ul||37˚C 2h/0.5 ul CIP/37˚C 30’/50˚C 30’
 |}
+<html>
 <p>Result: Gel extraction was made.</p>
-<p>GEL GÖRÜNTÜSÜ</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 437: / Line 479: @@
 |4||ptre delta tre cip +||biospec||7/9/2015 6:35:35 PM||86.0||ng/ul||1.721||0.947||1.82||0.25||DNA||50.00
 |}
+<html>
 <br>
-Creating “Plasmid pCAG” – Continue (12.07.2015)
+Creating “Plasmid pCAG” – Continue
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE   TRE“ and „Digested promoter pCAG“
@@ Line 451: / Line 496: @@
 |2||-||3.0 ul||7.0 ul||0.5 ul||2.0 ul||7.5 ul||20.0 ul
 |}
+<html>
 <p>Room Temperature 1h</p>
-<p>Sonuc: Transformation was made. No colonies were observed at first plate. At the second plate there was five colonies. Colony PCR will be made.</p>
+<p>Result: Transformation was made. No colonies were observed at first plate. At the second plate there was five colonies. Colony PCR will be made.</p>
+</div>
+    <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('4');">Week 4<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="4" class="tiger"></a>
+<div class="box">
-<html>
+Creating “Plasmid pCAG” – Continue
-</div>
-</section>
-<section class="accordion">
-          <div>
-            <input id="july-week3" name="july-week3" type="checkbox" />
-            <label for="july-week3">Week 3, 13.07.-19.07.</label>
-            <article class="ac-small">
 </html>
-Creating “Plasmid pCAG” – Continue (13.07.2015)
 {| border="1" class="wikitable"
 !Colony  PCR from “pCAG” with “pTRE Luc fwd/SV40 polyA re. primers”
@@ Line 485: / Line 524: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/6/6d/ATOMS-Turkiye_plasmid_pcag.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/6/6d/ATOMS-Turkiye_plasmid_pcag.jpeg" width="250" height="330"></a>
 <p>Result: All bands were observed around 700 bp, results were negative. Ligation will be repeated.</p>
 	<p>(+) bant: 923 bp</p>
 	<p>(-) bant: 705 bp</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Creating “Plasmid pCAG” – Repeat  (19.07.2015)
+Creating “Plasmid pCAG” – Repeat
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE   TRE“ and „Digested Promoter pCAG“
@@ Line 505: / Line 546: @@
 |}
+<html>
 <p>Vector:Insert</p>
       <p>3:1</p>
@@ Line 512: / Line 554: @@
 <p>CIP (-): Colony PCR will be made.</p>
-<html>
 </div>
-</section>
-<section class="accordion">
+    <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('5');">Week 5<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="5" class="tiger"></a>
-          <div>
-            <input id="july-week4" name="july-week4" type="checkbox" />
-            <label for="july-week4">Week 4, 20.07.-26.07.-31.07.</label>
-            <article class="ac-small">
-</html>
-Creating “Plasmid pCAG” – Continue (20.07.2015)
+<div class="box">
+Creating “Plasmid pCAG” – Continue
+</html>
 {| border="1" class="wikitable"
 !Colony  PCR from “pCAG” with “pTRE Luc fwd/SV40 polyA re. primers”
@@ Line 542: / Line 581: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/4/40/ATOMS-Turkiye_pcag_cip_colony_pcr.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/4/40/ATOMS-Turkiye_pcag_cip_colony_pcr.jpeg" width="250" height="350"></a>
 <p>Result: All bands were observed around 700 bp, results were negative. Ligation will be repeated.</p>
 	<p>(+) bant: 923 bp</p>
 	<p>(-) bant: 705 bp</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Creating “pCAG (Plasmid) – Repeat (23.07.2015)
+Creating “pCAG (Plasmid) – Repeat
-{| border="1" class="sortable"
+</html>
+{| border="1" class="wikitable"
 !PCR from “pCAGGS”
 |-
@@ Line 567: / Line 608: @@
 |Time||2’||10’’||30’’||1’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/1/13/ATOMS-Turkiye_pcag_rwd_cag_rev.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/1/13/ATOMS-Turkiye_pcag_rwd_cag_rev.jpeg" width="390" height="250"></a>
 <p>Gel Extraction will made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 581: / Line 624: @@
 |3||pcag y||biospec||7/23/2015 6:58:53 PM||23.3||ng/ul||0.466||0.233||2.00||1.94||DNA||50.00
 |}
+<html>
 <br>
-Resuspension of “Newly Arrived G-Blocks from IDT” (S. 23/23.7.2015)
+Resuspension of “Newly Arrived G-Blocks from IDT”
 <p>100 ul TE for all tubes.</p>
+</html>
 {| border="1" class="wikitable"
 !!!!!ng!!fmol!!TE ul!!fmol/ul!!ul of inserts for 75 fmol
@@ Line 625: / Line 670: @@
 |18||MVF-sicA for ColA||1000||1042||100||10.42||7.20
 |}
+<html>
 Not: 100ng pSB1C3 (2050 bp) ≈ 75 fmol
-<br>
-Digestion of „G-Blocks from IDT and pSB1C3“ (23.07.2015)
-{| border="1" class="wikitable"
-!Digestion
-|-
-|||Insert ||EcoRI-HF||PstI||NEB 2.1 Buffer||ddH₂O||Total
-|-
-|1x||10.0 ul||1.0 ul||1.0 ul||2.0 ul||6.0 ul||20.0 ul
-|-
-|17x||10.0 ul||17.0 ul||17.0 ul||34.0 ul||102.0 ul||20.0 ul
-|}
-{| border="1" class="wikitable"
-!Digestion
-|-
-|||Vector||EcoRI-HF||PstI||NEB 2.1 Buffer||ddH₂O||Total
-|-
-|2x||17.0 ul||1.0 ul||1.0 ul||2.0 ul||-||21.0 ul
-|}
-<p>Result: Gel extraction was made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
 PCR of “G-Blocks from IDT” (24.07.2015)
+</html>
 {| border="1" class="wikitable"
 !PCR from G-Bloks
@@ Line 681: / Line 705: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/8/8d/ATOMS-Turkiye_pcr_gblock.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/8/8d/ATOMS-Turkiye_pcr_gblock.jpeg" width="390" height="250"></a>
 <p>Results: Bands were at the expected section.</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Gel Extraction (24.07.2015)
+Gel Extraction
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 695: / Line 720: @@
 |2||pSB1C3||biospec||7/24/2015 12:41:56 PM||42.2||ng/ul||0.848||0.430||1.97||2.05||DNA||50.00
 |}
+<html>
 <br>
-Ligation of „G-Blocks from IDT and pSB1C3“ (24.07.2015)
+Ligation of „G-Blocks from IDT and pSB1C3“
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 720: / Line 747: @@
 |8||4.9 ul||2.5 ul||2.0 ul||1.0 ul||9.6 ul||20.0 ul
 |}
+<html>
 <p>RT 1h</p>
@@ Line 725: / Line 753: @@
 <p>(The results of psb1c3 gel extraction was lower. So we performed only the first 7 gene ligation.)</p>
+</html>
 {| border="1" class="wikitable"
 !1!!Toehold for cola
@@ Line 742: / Line 771: @@
 |8||TlpB for cola (NEB1)
 |}
+<html>
 <br>
 Creating “Plasmid pCAG”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 757: / Line 788: @@
 |3||-||-||10 ul||0.5 ul||0.5 ul||2.0 ul||7.0 ul||20.0 ul||37˚C overnight
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/f/f0/ATOMS-Turkiye_digastion_ptre_and_pcag.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/f/f0/ATOMS-Turkiye_digastion_ptre_and_pcag.jpeg" width="250" height="390"></a>
 <p>Bands were at the expected section. Gel extraction wil be made.</p>
 <p>The Final Concentration</p>
@@ Line 764: / Line 797: @@
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 773: / Line 807: @@
 |3||ptre delta tre ||biospec||7/25/2015 5:07:44 AM||194.0||ng/ul||3.880||2.033||1.91||2.20||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “pSB1C3 – GBlocks”  (25.07.2015)
+Colony PCR of “pSB1C3 – GBlocks”
+</html>
 {| border="1" class="wikitable"
 !PCR from “pCAGGS”
@@ Line 796: / Line 832: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/b/b1/ATOMS-Turkiye_25_07_colony_pcr.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/b/b1/ATOMS-Turkiye_25_07_colony_pcr.jpeg" width="390" height="200"></a>
+<a href="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_25_07_colony_pcr2.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_25_07_colony_pcr2.jpeg" width="390" height="200"></a>
+<a href="https://static.igem.org/mediawiki/2015/e/eb/ATOMS-Turkiye_25_07_colony_pcr3.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/e/eb/ATOMS-Turkiye_25_07_colony_pcr3.jpeg" width="390" height="200"></a>
 <p>Sonuc: 8-3 ve 4-9 bands were at the expected section. Liquid Culture was made.</p>
-GEL GÖRÜNTÜLERI
 <br>
 Colony PCR of “G-Blocks” (25.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Colony PCR of “2,3,6,8”
@@ Line 850: / Line 889: @@
 |Time||5’||30’’||2’||1.5’||5’||35x
 |}
+<html>
 <br>
-G-Blocks PCR / Gel Electrophoresis (25.07.2015)
+G-Blocks PCR / Gel Electrophoresis
+</html>
 {| border="1" class="wikitable"
 !PCR
@@ Line 872: / Line 913: @@
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/b/b3/ATOMS-Turkiye_27_07_gblock_pcr.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/b/b3/ATOMS-Turkiye_27_07_gblock_pcr.jpeg" width="390" height="230"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
+</html>
 {| border="1" class="wikitable"
@@ Line 895: / Line 939: @@
 |}
+<html>
 <br>
-Colony PCR of “pSB1C3- GBlocks” (26.07.2015)
+Colony PCR of “pSB1C3- GBlocks”
+</html>
 {| border="1" class="wikitable"
 !Gradient PCR from pCAGGS
@@ Line 916: / Line 962: @@
 |}
+<html>
 <p>Result: negative</p>
 <br>
-Digestion of “pTEToff” (26.07.2015)
+Digestion of “pTEToff”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 928: / Line 976: @@
 |Volume||3.1 ul||0.5 ul||0.5 ul||2.0 ul||13.9 ul||20.0 ul
 |}
+<html>
 <p>37˚C 1h</p>
+<a href="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_06_07_ptetoff_digestion.jpeg"  data-lightbox="image-1" class="img="center"><img src="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_06_07_ptetoff_digestion.jpeg" width="250" height="350"></a>
 <p>Result: Bands were at the expected section. Gel purification was made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 942: / Line 992: @@
 |}
+<html>
 <br>
 Creating “Plasmid pCAG” – Continue  (27.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE   TRE“ and „Digested pCAG“
@@ Line 957: / Line 1,009: @@
 |}
+<html>
 <p>Result: On the first plate was six colonies. On the second plate was nine colonies.</p>
 Colony PCR will be made.
@@ Line 963: / Line 1,016: @@
 Colony PCR of „pCAG (plasmid)“
+</html>
 {| border="1" class="wikitable"
 !PCR
@@ Line 981: / Line 1,035: @@
 |}
+</html>
+<a href="https://static.igem.org/mediawiki/2015/b/bb/ATOMS-Turkiye_26_07_15_colony_pcr.jpeg"  data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/bb/ATOMS-Turkiye_26_07_15_colony_pcr.jpeg" width="390" height="230"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of “pSB1C3 – Gblocks” (27.07.2015)
+Colony PCR of “pSB1C3 – Gblocks”
+<html>
 {| border="1" class="wikitable"
 !PCR
@@ Line 1,007: / Line 1,063: @@
 |}
-<p>Sonuc: Only 16-9 is positive.</p>
+<html>
-GEL GÖRÜNTÜLERI
+<a href="https://static.igem.org/mediawiki/2015/5/56/ATOMS-Turkiye_27%2C07%2Cpcr7.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/56/ATOMS-Turkiye_27%2C07%2Cpcr7.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/9/9a/ATOMS-Turkiye_27%2C07%2C15%2C16.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/9a/ATOMS-Turkiye_27%2C07%2C15%2C16.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/b/bc/ATOMS-Turkiye_27%2C07%2Ccolony_pcr6.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/bc/ATOMS-Turkiye_27%2C07%2Ccolony_pcr6.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/f/f0/ATOMS-Turkiye_27%2C08%2Claco%2Cdsred.jpeg" data-lightbox="image-1" class="https://static.igem.org/mediawiki/2015/f/f0/ATOMS-Turkiye_27%2C08%2Claco%2Cdsred.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/8/8e/ATOMS-Turkiye_27%2C07%2Cpcr8.jpeg" data-lightbox="image-1" class="https://static.igem.org/mediawiki/2015/8/8e/ATOMS-Turkiye_27%2C07%2Cpcr8.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_27_07_mir26b.jpeg" data-lightbox="image-1" class="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_27_07_mir26b.jpeg" width="410" height="360"></a>
+<p>Result: Only 16-9 is positive.</p>
 <br>
-Colony PCR of “pSB1C3 – Gblocks” (28.07.2015)
+Colony PCR of “pSB1C3 – Gblocks”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR of “2,3,8,9,11,13,14”
@@ Line 1,031: / Line 1,095: @@
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/a/a8/ATOMS-Turkiye_28%2C07%2Ccolony.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a8/ATOMS-Turkiye_28%2C07%2Ccolony.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/9/98/ATOMS-Turkiye_28%2C07%2C8%2C13%2C14.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/98/ATOMS-Turkiye_28%2C07%2C8%2C13%2C14.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/f/fd/ATOMS-Turkiye_28_07_9%2C11.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/f/fd/ATOMS-Turkiye_28_07_9%2C11.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜLERI
 <br>
@@ Line 1,038: / Line 1,106: @@
 Digestion of “HNS, HNS-T108I, potB59-pomA, GadE, TlpB, DAMP-Pex, Tev Protease” (27.07.2015)
 <p>Inserts from GBlocks were digested to ligate with PET45.</p>
-tab2wiki
+</html>
-Tools
-Git
-Talk
-Powered by Wikimedia Labs
-Copy the following into the wiki - done!
 {| border="1" class="wikitable"
 !!!4!!5!!6!!7!!8!!9!!10
@@ Line 1,070: / Line 1,133: @@
 |}
+<html>
 <p>Total: 20 ul</p>
 <p>37˚C overnight</p>
@@ Line 1,077: / Line 1,141: @@
 Ligation of “GBlocks (4,5,6,7,8,10)” and “PET45 (X+B)”
+</html>
 {| border="1" class="wikitable"
 !!!4!!5!!6!!7!!8!!10
@@ Line 1,094: / Line 1,158: @@
 |}
+<html>
 Room Temperature 2h
 <br>
+</html>
 {| border="1" class="wikitable"
 !!!11!!14
@@ Line 1,114: / Line 1,180: @@
 |}
+</html>
 Room Temperature 2h
 <br>
-Creating of “pTRE – mLacI miRNA-BS” (27.07.2015)
+Creating of “pTRE – mLacI miRNA-BS”
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pTRE” and G-Blocks”
@@ Line 1,131: / Line 1,199: @@
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/0/01/ATOMS-Turkiye_27_07_ptre_digestion.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/0/01/ATOMS-Turkiye_27_07_ptre_digestion.jpeg" width="410" height="360"></a>
 <p>Gel purification was made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,144: / Line 1,214: @@
 |}
+<html>
 <br>
 Creating of “pTRE – mLacI miRBS” (27.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE” and “mLacI miRBS”
@@ Line 1,156: / Line 1,228: @@
 |2||1.0 ul||-||5.9 ul||2.0 ul||0.5 ul||10.6 ul||20.0 ul
 |}
+<html>
 <p>Room Temperature 2h</p>
 Transformation was made with TOP10.
@@ Line 1,162: / Line 1,235: @@
 Creating of “pTEToff – miRBS” (27.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 1,174: / Line 1,248: @@
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,184: / Line 1,260: @@
 |}
+<html>
 <br>
 Creating of “pTEToff – miRNA Switch miR BS” (28.07.2015)
+</html>
 {| border="1" class="wikitable"
 !Ligation of „pTRE” and “mLacI miRBS”
@@ Line 1,196: / Line 1,274: @@
 |2||2.2 ul||-||4.0 ul||2.0 ul||0.5 ul||11.3 ul||20.0 ul
 |}
+<html>
 <p>Room Tempretare 2h</p>
 Transformation was made.
@@ Line 1,202: / Line 1,281: @@
 Creating of “pCAG”
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pCAG (Promotor)”
@@ Line 1,212: / Line 1,292: @@
 |}
+<html>
 <br>
 Mini Prep of “Colony PCR 16-9”
+<html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,227: / Line 1,309: @@
 |}
+<html>
 <br>
 Mini Prep of “pTEToff”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,240: / Line 1,324: @@
 |}
+<html>
 <br>
 Cut Check of “HNS toehold and Trigger RNA” (30.07.2015)
+<html>
 {| border="1" class="wikitable"
 !!!HNS (70 ng/ul)!!TlpB (87 ng/ul)!!Trigger RNA (80 ng/ul)!!EcoRI (Thermo)!!PstI (Thermo)!!Fast Digest Buffer!!ddH₂O!!Total!!
@@ Line 1,253: / Line 1,339: @@
 |}
+<html>
 <p>Gel Electropheres was made.</p>
+<a href="https://static.igem.org/mediawiki/2015/7/7e/ATOMS-Turkiye_30%2C06%2Ccutcheck.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/7e/ATOMS-Turkiye_30%2C06%2Ccutcheck.jpeg" width="410" height="360"></a>
 <p>Result: Bands were at the expected section.</p>
 	<p>HNS: 480 bp</p>
 	<p>tgRNA:˞ 100bp</p>
 	<p>Toehold: ˃1000bp</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of „9-10 GBlocks“ (31.07.2015)
+Colony PCR of „9-10 GBlocks“
+<a href="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_31%2C07%2C9%2Ccolony_pcr.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/1/1f/ATOMS-Turkiye_31%2C07%2C9%2Ccolony_pcr.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_31%2C07%2C10%2Ccolony.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_31%2C07%2C10%2Ccolony.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
 <p>Expected: ˞1100 bp</p>
@@ Line 1,270: / Line 1,359: @@
 Gel extraction 1-6
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,278: / Line 1,368: @@
 |}
+<html>
 <br>
 Gel extraction 8-9
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,289: / Line 1,381: @@
 |}
+<html>
 <br>
 Colony PCR of „pSB1C3 – Gblocks“
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,310: / Line 1,404: @@
 |}
+<html>
 <p>Result: negative</p>
-GEL GÖRÜNTÜLERI
-<html>
 </div>
-</section>
-</div>
-</div>
@@ Line 1,330: / Line 1,414: @@
 <div id="content-div">
-<p>11.08.2015 We started designing our wiki.</p>
+<p>11.08. We started designing our wiki.</p>
 <p>18.08.2015 We got a little tired of doing experiments, so treated ourselves with an awesome team dinner at a fish restaurant.</p>
 <p>22.08.2015 A team dinner again, but this time our dear professors Mehmet and Esra Gündüz hosted us at their house.</p>
 <p>29.08.2015 Wiki’s tour part is drawn, now it’s time to color these drawings!</p>
+</div>
-<html>
+  <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('6');">Week 6<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="6" class="tiger"></a>
-    <div style="margin-bottom:60px">
-      <section class="accordion">
-          <div>
+<div class="box">
-            <input id="august-week0" name="august-week0" type="checkbox" />
-            <label for="august-week0">Week 1, 01.08.-02.08.</label>
-            <article class="ac-small">
-</html>
 Mini Prep of “pSB1C3-RFP”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,369: / Line 1,451: @@
 |}
+<html>
 <br>
-Ligation of „pSB1C3 – Gblocks“ (02.08.2015)
+Ligation of „pSB1C3 – Gblocks“
+</html>
 {| border="1" class="wikitable"
 !!!2!!3!!5!!6!!7!!8!!9!!10!!11!!12!!13!!14!!15!!
@@ Line 1,390: / Line 1,474: @@
 <html>
+</div>
+      <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('7');">Week 7<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="7" class="tiger"></a>
+<div class="box">
-</section>
+Colony PCR of „pSB1C3 – Gblocks“
-    <section class="accordion">
-          <div>
-            <input id="august-week1" name="august-week1" type="checkbox" />
-            <label for="august-week1">Week 2, 03.08.-09.08.</label>
-            <article class="ac-small">
 </html>
-Colony PCR of „pSB1C3 – Gblocks“ (03.08.2015)
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,419: / Line 1,498: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-<p>Sonuc: negative</p>
+<html>
-GEL GÖRÜNTÜSÜ
+<a href="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_03_08_colony_pcr.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_03_08_colony_pcr.jpeg" width="410" height="340"></a>
+<p>Result: negative</p>
 <br>
-Colony PCR of „pSB1C3 – Gblocks #14“ (03.08.2015)
+Colony PCR of „pSB1C3 – Gblocks #14“
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,442: / Line 1,523: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-<p>Sonuc: negative</p>
+<html>
-GEL GÖRÜNTÜSÜ
+<a href="https://static.igem.org/mediawiki/2015/1/19/ATOMS-Turkiye_03_08_colony_pcr_14.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/1/19/ATOMS-Turkiye_03_08_colony_pcr_14.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/b/bf/ATOMS-Turkiye_03_08_colony_pcr_14_1.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/bf/ATOMS-Turkiye_03_08_colony_pcr_14_1.jpeg" width="360" height="360"></a>
+<p>Result: negative</p>
 <br>
-Digestion of “pSB1C3-RFP” (03.08.2015)
+Digestion of “pSB1C3-RFP”
+</html>
 {| border="1" class="wikitable"
 !Digestion of “pSB1C3-RFP”
@@ Line 1,455: / Line 1,539: @@
 |1x||2.0 ul||2.0 ul||1.0 ul||1.0 ul||14.0 ul||20.0 ul
 |}
+<html>
 <p>37˚C 2h</p>
+<a href="https://static.igem.org/mediawiki/2015/d/df/ATOMS-Turkiye_03_08_rfp_kesim.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/d/df/ATOMS-Turkiye_03_08_rfp_kesim.jpeg" width="410" height="360"></a>
 <p>Gel Electropheresis was made.</p>
 <p>Result: Bands were at the expected section. Gel purification was made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
 Ligation of “pSB1C3 – Gblock #14”
+</html>
 {| border="1" class="wikitable"
 !Ligation of “pSB1C3 – Gblock #14”
@@ Line 1,481: / Line 1,567: @@
 |||1.0 ul||8.7 ul||20.0 ul
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,493: / Line 1,581: @@
 |4||psb1c3 clean-up||biospec||8/3/2015 6:13:39 PM||170.5||ng/ul||3.409||1.884||1.81||1.33||DNA||50.00
 |}
+<html>
 <br>
 PCR of “G-Bloks via Q5 Polymerase” (04.08.2015)
+</html>
 {| border="1" class="wikitable"
 !PCR!!!!!!!!!!!!
@@ Line 1,504: / Line 1,594: @@
 |1x||2.5 ul||2.5 ul||2.5 ul||10.0 ul||5.0 ul||20.0 ul
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Cycling SV40 rev/CMV fwd
@@ Line 1,514: / Line 1,606: @@
 |Time||5’||30’’||30’’||1’||2’||35x
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Cycling CMV fwd/tetR rev
@@ Line 1,524: / Line 1,618: @@
 |Time||30’’||10’’||30’’||1’||2’||35x
 |}
+<html>
 <br>
-Digestion of “pSB1C3-RFP” (04.08.2015)
+Digestion of “pSB1C3-RFP”
+</html>
 {| border="1" class="wikitable"
 !Digestion!!!!!!!!!!!!
@@ Line 1,536: / Line 1,632: @@
 |}
+<html>
 <p>37˚C 4h</p>
+<a href="https://static.igem.org/mediawiki/2015/8/84/ATOMS-Turkiye_04_08_15.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/84/ATOMS-Turkiye_04_08_15.jpeg" width="410" height="360"></a>
 <p>Result: Bands were at the expected section.</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,553: / Line 1,651: @@
 |5||gel ext ||biospec||8/4/2015 7:06:51 AM||36.2||ng/ul||0.723||0.380||1.90||0.29||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “11,12,13 pSB1C3 - GBlocks” (04.08.2015)
+Colony PCR of “11,12,13 pSB1C3 - GBlocks”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,574: / Line 1,674: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/3/30/ATOMS-Turkiye_04_08_15_colony_pcr_11%2C12%2C13.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/3/30/ATOMS-Turkiye_04_08_15_colony_pcr_11%2C12%2C13.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Ligation and Transformation of “5,6,7,8,9 pSB1C3-GBlocks” (04.08.2015)
+Ligation and Transformation of “5,6,7,8,9 pSB1C3-GBlocks”
+</html>
 {| border="1" class="wikitable"
 !Ligation of “GBlocks 11-12 pSB1C3”
@@ Line 1,596: / Line 1,697: @@
 |9||0.8 ul||1.79 ul||1.0 ul||0.5 ul||5.91 ul||10.0 ul
 |}
+<html>
 <p>50ng DNA</p>
 <p>1 vector:0.5 insert</p>
@@ Line 1,602: / Line 1,704: @@
 <br>
-Ligation of “GBlocks 11-12 pSB1C3” (05.08.2015)
+Ligation of “GBlocks 11-12 pSB1C3”
+</html>
 {| border="1" class="wikitable"
 !Ligation of “GBlocks 11-12 pSB1C3”
@@ Line 1,612: / Line 1,715: @@
 |12||0.4 ul||1.1 ul||1.0 ul||0.5 ul||7.0 ul||10.0 ul
 |}
+<html>
 Transformation was made.
 <br>
-Colony PCR of “5,6,7,8,9,T7 system – Gblocks” (05.08.2015)
+Colony PCR of “5,6,7,8,9,T7 system – Gblocks”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,633: / Line 1,738: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-GEL GÖRÜNTÜSÜ
+<html>
 <br>
-Ligation of “GBlocks 2,5,6,7,8,9,10,12,13,15,17 pSB1C3-RFP” (06.08.2015)
+Ligation of “GBlocks 2,5,6,7,8,9,10,12,13,15,17 pSB1C3-RFP”
+</html>
 {| border="1" class="wikitable"
 !Ligation of “GBlocks 11-12 pSB1C3”
@@ Line 1,665: / Line 1,771: @@
 |17||1.4 ul||1.25 ul||1.0 ul||0.5 ul||5.75 ul||10.0 ul
 |}
+<html>
 Transformation was made.
@@ Line 1,672: / Line 1,779: @@
 Colony PCR of “pTRE-1,13,15” (06.08.2015)
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,688: / Line 1,796: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/9/98/ATOMS-Turkiye_07_08_colony_pcr_1%2C2%2C3.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/98/ATOMS-Turkiye_07_08_colony_pcr_1%2C2%2C3.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
 GEL GÖRÜNTÜSÜ
@@ Line 1,694: / Line 1,803: @@
 <br>
-Colony PCR of “5,6,7,9 – Gblocks” (06.08.2015)
+Colony PCR of “5,6,7,9 – Gblocks”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,712: / Line 1,822: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/2/2c/ATOMS-Turkiye_05_08_5%2C6%2C9.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/2/2c/ATOMS-Turkiye_05_08_5%2C6%2C9.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_05_08_7%2C9.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/55/ATOMS-Turkiye_05_08_7%2C9.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of “7,8,10 – Gblocks” from Masterplate  (08.08.2015)
+Colony PCR of “7,8,10 – Gblocks” from Masterplate
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,734: / Line 1,847: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Digestion of “pET45” (09.08.2015)
+Digestion of “pET45”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 1,749: / Line 1,863: @@
 |2||4.0 ul||-||2.0 ul||1.0 ul||1.0 ul||-||-||12.0 ul||20.0 ul
 |}
+<html>
 <p>37˚C 3.5h</p>
+<a href="https://static.igem.org/mediawiki/2015/b/bd/ATOMS-Turkiye_09_09_pet45_digestion.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/bd/ATOMS-Turkiye_09_09_pet45_digestion.jpeg" width="410" height="360"></a>
 <p>Result: Positive. Gel extraction was made.</p>
-GEL GÖRÜNTÜSÜ
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,766: / Line 1,882: @@
 <html>
 </div>
-</section>
-<section class="accordion">
-          <div>
+ <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('8');">Week 8<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="8" class="tiger"></a>
-            <input id="august-week2" name="august-week2" type="checkbox" />
-            <label for="august-week2">Week 3, 10.16.-10.16.</label>
+Ligation of “PET45 – HNS”
-            <article class="ac-small">
 </html>
-Ligation of “PET45 – HNS” (10.08.2015)
 {| border="1" class="wikitable"
 !Ligation
@@ Line 1,782: / Line 1,895: @@
 |1x||2.1 ul||1.0 ul||2.0 ul||0.5 ul||14.4 ul||20.0 ul
 |}
+<html>
 <p>16˚C 2h</p>
@@ Line 1,787: / Line 1,901: @@
 Digestion of “pSB1C3 – HNS”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 1,794: / Line 1,909: @@
 |1x||11.5 ul||1.0 ul||1.0 ul||2.0 ul||4.5 ul||20.0 ul
 |}
+<html>
 ˚C 3h
@@ Line 1,799: / Line 1,915: @@
 Colony PCR of “pTRE #13”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,815: / Line 1,932: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/0/00/ATOMS-Turkiye_11_08_colony_pcr_13.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/0/00/ATOMS-Turkiye_11_08_colony_pcr_13.jpeg" width="370" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of “PET45-4,5,6,7,8,9,10” (10.08.2015)
+Colony PCR of “PET45-4,5,6,7,8,9,10”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 1,837: / Line 1,956: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://2015.igem.org/File:ATOMS-Turkiye_11_08_pet45_7,8.jpeg" data-lightbox="image-1" class="img="left"><img src="https://2015.igem.org/File:ATOMS-Turkiye_11_08_pet45_7,8.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/a/ae/ATOMS-Turkiye_11_08_pet45_4%2C5.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/ae/ATOMS-Turkiye_11_08_pet45_4%2C5.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/8/82/ATOMS-Turkiye_11_08_pet45_6%2C9.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/82/ATOMS-Turkiye_11_08_pet45_6%2C9.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/a/af/ATOMS-Turkiye_11_08_pet45_10.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/af/ATOMS-Turkiye_11_08_pet45_10.jpeg" width="410" height="360"></a>
 <p>Result: Bands were at the expected section. Liquid Culture was made.</p>
-GEL GÖRÜNTÜLERI
-<br>
-Digestion of „pColA-KanR  and „pSB1C3-Toehold“ (10.08.2015)
-{| border="1" class="wikitable"
-!Digestion
-|-
-|||pColA-KanR (500 ng/ul)||pSB1C3-Toehold (500 ng/ul)||NotI-HF (Neb)||Cut Smart Buffer||ddH₂O||Total||||||
-|-
-|1||11.6 ul||-||1.0 ul||2.0 ul||5.4 ul||20.0 ul||||||
-|-
-|2||-||6.5 ul||1.0 ul||2.0 ul||10.5 ul||20.0 ul||||||
-|}
-<p>37˚C 2h</p>
-<p>pColA-KanR: 1.0 ul rSAP/37˚C 1h/-80˚C 20’’ heat shock</p>
-GEL GÖRÜNTÜSÜ
 <br>
 Ligation of “pColA-KanR and pSB1C3-Toehold”
+</html>
 {| border="1" class="wikitable"
 !Ligation!!
@@ Line 1,871: / Line 1,978: @@
 |-K||2.0 ul||-||2.0 ul||1.0 ul||15.0 ul||20.0 ul||-
 |}
+<html>
 <p>22˚C 1h</p>
@@ Line 1,876: / Line 1,984: @@
 Mini Prep of “pColA-3,4,5”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,889: / Line 1,998: @@
 |5||ColA-5||biospec||8/11/2015 11:17:02 PM||44.4||ng/ul||0.887||0.449||1.98||1.76||DNA||50.00
 |}
+<html>
 <p>Result: The Band of pColA were at the expected section. 2000 pb</p>
-(CUT CHECK GÖRÜNTÜSÜ)(12.08.2015)
 <br>
 Ligation of “#2 GBlock with pET45” (11.08.2015)
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 1,902: / Line 2,012: @@
 |1x||1.0 ul||7.3 ul||2.0 ul||1.0 ul||8.7 ul||20.0 ul
 |}
+<html>
 <p>22˚C - 1’40’’</p>
 Transformation was made.
@@ Line 1,908: / Line 2,019: @@
 Mini Prep
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,957: / Line 2,069: @@
 |23||pet45 7-2||biospec||8/12/2015 7:57:16 PM||25.3||ng/ul||0.506||0.259||1.95||1.70||DNA||50.00
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 1,987: / Line 2,101: @@
 |12||pet45 7-1||biospec||8/12/2015 7:28:07 PM||52.5||ng/ul||1.050||0.549||1.91||1.83||DNA||50.00
 |}
+<html>
 <br>
-Cut Check of “pET45 1,4,5,6,7,8,9,10 – BamHI/XhoI” (13.08.2015)
+Cut Check of “pET45 1,4,5,6,7,8,9,10 – BamHI/XhoI”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,012: / Line 2,128: @@
 |10||5.9 ul||2.0 ul||1.0 ul||1.0 ul||10.1 ul||20.0 ul
 |}
-<p>Dogru cikan koloniler BL21 bakterisine transformasyon edildi ve sivi kültür yapildi. Sonrasinda protein izolasyon ve WB yapilacak.</p>
+<html>
+<a href="https://static.igem.org/mediawiki/2015/1/13/ATOMS-Turkiye_13_08_cutcheck_7%2C8%2C9%2C10.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/1/13/ATOMS-Turkiye_13_08_cutcheck_7%2C8%2C9%2C10.jpeg" width="410" height="360"></a>
-GEL GÖRÜNTÜLERI
+<a href="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_12_08_cutcheck.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_12_08_cutcheck.jpeg" width="410" height="360"></a>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,025: / Line 2,142: @@
 |2||psb1c3-e+p||biospec||8/13/2015 1:32:58 AM||58.6||ng/ul||1.172||0.618||1.90||0.57||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “pTRE – 12,13 GBlocks” (14.08.2015)
+Colony PCR of “pTRE – 12,13 GBlocks”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,045: / Line 2,164: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-<p>Sonuc: negative</p>
+<html>
+<a href="https://2015.igem.org/File:ATOMS-Turkiye_14_08_ptre_12,13.jpeg" data-lightbox="image-1" class="img="left"><img src="https://2015.igem.org/File:ATOMS-Turkiye_14_08_ptre_12,13.jpeg" width="410" height="360"></a>
-GEL GÖRÜNTÜSÜ
+<p>Result: negative</p>
 <br>
-Colony PCR of “pColA – Toehold GFP” (14.08.2015)
+Colony PCR of “pColA – Toehold GFP”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,068: / Line 2,188: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/e/e2/ATOMS-Turkiye_14_08_toehold_gfp.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/e/e2/ATOMS-Turkiye_14_08_toehold_gfp.jpeg" width="410" height="360"></a>
 <p>Result: 2-4, 2-8, 1-6 Bands were at the expected section.</p>
 <br>
-Digestion of “pSB1C3-RFP” (14.08.2015)
+Digestion of “pSB1C3-RFP”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 2,084: / Line 2,207: @@
 |3||5.0 ul||2.0 ul||1.0 ul||1.0 ul||11.0 ul||20.0 ul
 |}
+<html>
 <p>37˚C – 3.5h</p>
 Gel extraction was made.
@@ Line 2,090: / Line 2,214: @@
 Ligation of “pSB1C3-GBlocks”
-{| border="1" class="sortable"
+</html>
+{| border="1" class="wikitable"
 !Ligation
 |-
@@ Line 2,098: / Line 2,223: @@
 |}
 <p>22˚C – 1.30h</p>
+<html>
 Transformation with Neb10-β. Colony PCR will be made.
 <br>
-Colony PCR of “GBlocks – 2,5,6,7,8,9” (14.08.2015)
+Colony PCR of “GBlocks – 2,5,6,7,8,9”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,121: / Line 2,248: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-GEL GÖRÜNTÜLERI
+<html>
+<a href="https://static.igem.org/mediawiki/2015/8/8f/ATOMS-Turkiye_14_08_psb1c3_gblocks.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/8f/ATOMS-Turkiye_14_08_psb1c3_gblocks.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/b/bf/ATOMS-Turkiye_14_08_colony_pcr_6s_7s.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/bf/ATOMS-Turkiye_14_08_colony_pcr_6s_7s.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/d/d7/ATOMS-Turkiye_14_08_gblock_2.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/d/d7/ATOMS-Turkiye_14_08_gblock_2.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/5/5b/ATOMS-Turkiye_14_08_colony_pcr_10s_13s.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/5b/ATOMS-Turkiye_14_08_colony_pcr_10s_13s.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/7/73/ATOMS-Turkiye_14_08_colony_pcr_15.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/73/ATOMS-Turkiye_14_08_colony_pcr_15.jpeg" width="410" height="360"></a>
 <br>
-Digestion/Gel Electrophoresis/Gel Extraction and Purification of “pSB1C3” (16.08.2015)
+Digestion/Gel Electrophoresis/Gel Extraction and Purification of “pSB1C3”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 2,133: / Line 2,265: @@
 |1x||2.5 ul||2.0 ul||1.0 ul||1.0 ul||13.5 ul||20.0 ul
 |}
+<html>
 <p>37˚C 1h</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,144: / Line 2,278: @@
 |2||psb1c3-e+p||biospec||8/16/2015 10:47:18 PM||14.0||ng/ul||0.279||0.145||1.92||0.15||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “pSB1C3 7,10,12,13 and pET45 2” (14.08.2015)
+Colony PCR of “pSB1C3 7,10,12,13 and pET45 2”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR of “pSB1C3 7,10,12,13”
@@ Line 2,164: / Line 2,300: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/e/e6/ATOMS-Turkiye_14_08_12%2C13%2C10%2C7.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/e/e6/ATOMS-Turkiye_14_08_12%2C13%2C10%2C7.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/6/6d/ATOMS-Turkiye_14_08_pet45_2.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/6/6d/ATOMS-Turkiye_14_08_pet45_2.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
-<br>
-{| border="1" class="wikitable"
-!Colony PCR of “pET45 2”
-|-
-|||MgCl₂||(NH₄)2SO₄||VR||VF||dNTP||Tag||ddH₂O||DNA||Total
-|-
-|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
-|-
-|12X||30.0 ul||30.0 ul||12.0 ul||12.0 ul||6.0 ul||2.4 ul||147.6 ul||||240.0 ul
-|}
-{| border="1" class="wikitable"
-!Cycling
-|-
-|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
-|-
-|Time||5’||30’’||30’’||1.5’||5’||35x
-|}
-<p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,221: / Line 2,339: @@
 |14||pcola blunt 6||biospec||8/16/2015 8:07:30 PM||31.1||ng/ul||0.623||0.314||1.98||1.67||DNA||50.00
 |}
+<html>
 <br>
-<html>
 </div>
-</section>
-<section class="accordion">
+ <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('8');">Week 8<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="8" class="tiger"></a>
-          <div>
+</html>
-            <input id="august-week3" name="august-week3" type="checkbox" />
+Ligation of “pColA and pSB1C3 #9 (Damp-Pex)”
-            <label for="august-week3">Week 4, 17.08.-23.08.</label>
-            <article class="ac-small">
 </html>
-Ligation of “pColA and pSB1C3 #9 (Damp-Pex)” (18.08.2015)
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,245: / Line 2,358: @@
 |9.2||2.0 ul||2.8 ul||2.0 ul||1.0 ul||12.2 ul||20.0 ul||1:1
 |}
+<html>
 <br>
 Miniprep of “pTet-off DH5α /Top10/NEB5fα/NEB10β”
+/<html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,262: / Line 2,377: @@
 |5||neb10beta||biospec||8/18/2015 3:08:22 PM||214.6||ng/ul||4.292||2.264||1.90||2.19||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “pET45 #2.8” (15.08.2015)
+Colony PCR of “pET45 #2.8”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,282: / Line 2,399: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of “pSB1C3 17,6,8” (S. 118/15.08.2015)
+Colony PCR of “pSB1C3 17,6,8”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR of “pSB1C3 17,6,8”
@@ Line 2,304: / Line 2,422: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/5/5b/ATOMS-Turkiye_19_08_colony_pcr_6%2C8.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/5b/ATOMS-Turkiye_19_08_colony_pcr_6%2C8.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/9/99/ATOMS-Turkiye_18_07_psb1c3_17.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/99/ATOMS-Turkiye_18_07_psb1c3_17.jpeg" width="410" height="360"></a>
 <p>Result: 6: Liquid Culture was made.</p>
 	<p>8: sequencing will be done</p>
 <p>17: Colony PCR will be repeated.</p>
-GEL GÖRÜNTÜSÜ
 <br>
@@ Line 2,313: / Line 2,433: @@
 Colony PCR of “pColA blunt”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR of “pColA blunt”
@@ Line 2,329: / Line 2,450: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/a/a6/ATOMS-Turkiye_19_08_positiv_control.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a6/ATOMS-Turkiye_19_08_positiv_control.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-PCR of “Q5 DNA Polymerase for pCAG” (19.08.2015)
+PCR of “Q5 DNA Polymerase for pCAG”
+</html>
 {| border="1" class="wikitable"
 !PCR
@@ Line 2,349: / Line 2,473: @@
 |Time||30’’||10’’||30’’||1’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_19_08_pcag_q5.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_19_08_pcag_q5.jpeg" width="410" height="360"></a>
 <p>Result: Bands were at the expected section. PCR clean up will be made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
 Digestion of “pCAG – Clean up”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 2,364: / Line 2,490: @@
 |2||-||4.1 ul||0.5 ul||0.5 ul||2.0 ul||12.9 ul||20.0 ul
 |}
+<html>
 <p>37˚C overnight</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,375: / Line 2,503: @@
 |2||pcag||biospec||8/19/2015 7:10:01 PM||61.6||ng/ul||1.233||0.686||1.80||1.02||DNA||50.00
 |}
+<html>
 <br>
-Digestion of “pSB1C3 – mLacI miR373-BS” (19.08.2015)
+Digestion of “pSB1C3 – mLacI miR373-BS”
-{| border="1" class="sortable"
+</html>
+{| border="1" class="wikitable"
 !Digestion
 |-
@@ Line 2,386: / Line 2,516: @@
 |1||3.4 ul||0.5 ul||0.5 ul||2.0 ul||13.9 ul||20.0 ul||
 |}
+<html>
 <p>37˚C 2.30h</p>
+<a href="https://static.igem.org/mediawiki/2015/6/64/ATOMS-Turkiye_19_08_digestion_e_b.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/6/64/ATOMS-Turkiye_19_08_digestion_e_b.jpegg" width="410" height="360"></a>
 <br>
 Ligation of “pSB1C3 – mLacI miR373-BS with pTRE”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,398: / Line 2,531: @@
 |1||3.0 ul||1.0 ul||2.0 ul||1.0 ul||2.0 ul||13.0 ul||20.0 ul
 |}
+<html>
 <p>22˚C 1.30h</p>
 <p>Transformation will be made.</p>
@@ Line 2,403: / Line 2,537: @@
 <br>
-Colony PCR of “#6,8” (20.08.2015)
+Colony PCR of “#6,8”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,420: / Line 2,555: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
 <p>Result: Positive. Liquid Culture was made.</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,435: / Line 2,572: @@
 |4||6-1||biospec||8/22/2015 12:14:32 PM||33.3||ng/ul||0.666||0.354||1.88||1.44||DNA||50.00
 |}
+<html>
 <br>
 Cut Check of “#6,8”
+</html>
 {| border="1" class="wikitable"
 !Cut Check
@@ Line 2,450: / Line 2,589: @@
 |3||12.0 ul||0.5 ul||0.5 ul||2.0 ul||5.0 ul||20.0 ul
 |}
+<html>
 <p>37˚C 40’</p>
+<a href="https://static.igem.org/mediawiki/2015/c/c8/ATOMS-Turkiye_22_08_cutcheck_6%2C8.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/c/c8/ATOMS-Turkiye_22_08_cutcheck_6%2C8.jpeg" width="410" height="360"></a>
 <p>Result: positive</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR “pSB1C3 17,6,8 – pColA, Damp-Pex, pTetoff” (19.08.2015)
+Colony PCR “pSB1C3 17,6,8 – pColA, Damp-Pex, pTetoff”
+<a href="https://static.igem.org/mediawiki/2015/8/8c/ATOMS-Turkiye_19_08_colony_pcr_1%2C2.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/8c/ATOMS-Turkiye_19_08_colony_pcr_1%2C2.jpeg" width="410" height="360"></a>
-GEL GÖRÜNTÜLERI
+<a href="https://static.igem.org/mediawiki/2015/a/a4/ATOMS-Turkiye_19_08_colony_pcr_17%2C6.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a4/ATOMS-Turkiye_19_08_colony_pcr_17%2C6.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/4/4f/ATOMS-Turkiye_19_08_colony_pcr_14%2C8.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/4f/ATOMS-Turkiye_19_08_colony_pcr_14%2C8.jpeg" width="410" height="360"></a>
 <br>
 Mini Prep of “pSB1C3-#17”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,476: / Line 2,618: @@
 |5||psb1c3 17-10||biospec||8/20/2015 5:07:47 PM||105.4||ng/ul||2.108||1.087||1.94||2.15||DNA||50.00
 |}
+<html>
 <br>
 Digestion of “pSB1C3 T7-10 and pET45 #4-1, #5-3, #6-6, #8-15” (21.08.2015)
+</html>
 {| border="1" class="wikitable"
 !Digestion pET45 #4-1, #5-3, #6-6, #8-15
@@ Line 2,493: / Line 2,637: @@
 |#8-15||16.0 ul||1.0 ul||1.0 ul||2.0 ul||-||20.0 ul||
 |}
+<html>
 <p>37˚C 3h</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Digestion pSB1C3 T7-10
@@ Line 2,504: / Line 2,650: @@
 |#4-1||4.8 ul||1.0 ul||1.0 ul||2.0 ul||11.2 ul||20.0 ul||
 |}
+<html>
 <p>1ul rSAP / 37˚C 1h</p>
+<a href="https://static.igem.org/mediawiki/2015/e/ee/ATOMS-Turkiye_21_08_psb1c3_4%2C5%2C6%2C8.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/e/ee/ATOMS-Turkiye_21_08_psb1c3_4%2C5%2C6%2C8.jpeg" width="410" height="360"></a>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,521: / Line 2,670: @@
 |#8||1.0 ul||1.0 ul||2.0 ul||1.0 ul||15.0 ul||20.0 ul||
 |}
+<html>
 <p>22˚C 2h</p>
 <p>-80 ˚C 20’’ Heat Inaktivation</p>
@@ Line 2,526: / Line 2,676: @@
 <br>
-Colony PCR of “pTRE - #13 mLacI-miR373 BS” (21.08.2015)
+Colony PCR of “pTRE - #13 mLacI-miR373 BS”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,543: / Line 2,694: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
 <p>Results: negative</p>
-GEL GÖRÜNTÜLERI
 <br>
 Mini Prep of “pSB1C3 #6-25,26”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,558: / Line 2,710: @@
 |3||psb1c3 #6-26||biospec||8/20/2015 10:03:50 AM||46.0||ng/ul||0.920||0.464||1.98||1.97||DNA||50.00
 |}
+<html>
 <br>
 Cut Check of “pSB1C3 #6-25,26”
+</html>
 {| border="1" class="wikitable"
 !Cut Check
@@ Line 2,571: / Line 2,725: @@
 |#6-26||5.5 ul||0.5 ul||0.5 ul||2.0 ul||11.5 ul||20.0 ul
 |}
+<html>
 <p>37˚C 3h</p>
 <p>Result: negative</p>
@@ Line 2,577: / Line 2,732: @@
 Digestion of “pTRE #12”
+</html>
 {| border="1" class="wikitable"
 !Digestion
@@ Line 2,585: / Line 2,741: @@
 |}
 <p>37˚C 3h</p>
+<a href="https://static.igem.org/mediawiki/2015/3/33/ATOMS-Turkiye_psb1c3_6%2C25%2C26.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/3/33/ATOMS-Turkiye_psb1c3_6%2C25%2C26.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
+<html>
 <br>
-Digestion of “Damp-Pex pSB1C3” (22.08.2015)
+Digestion of “Damp-Pex pSB1C3”
+</html>
 {| border="1" class="wikitable"
 !Digestion pSB1C3 T7-10
@@ Line 2,600: / Line 2,758: @@
 |#9-10||3.56 ul||1.0 ul||2.0 ul||13.44 ul||20.0 ul||||
 |}
+<html>
 <p>37˚C 3h</p>
@@ Line 2,605: / Line 2,764: @@
 Ligation of “Damp-Pex pColA”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,612: / Line 2,772: @@
 |1x||2.8 ul||5.41 ul||2.0 ul||1.0 ul||15.0 ul||20.0 ul||
 |}
+<html>
 <p>22˚C 1.30h</p>
 <p>Transformation with NEB5α.</p>
@@ Line 2,617: / Line 2,778: @@
 <br>
-Colony PCR of “Damp-Pex + pColA” (23.08.2015)
+Colony PCR of “Damp-Pex + pColA”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,634: / Line 2,796: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/8/8b/ATOMS-Turkiye_24_08_damp_pex.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/8b/ATOMS-Turkiye_24_08_damp_pex.jpeg" width="410" height="360"></a>
 <p>Result: #5-4, #5-9 Liquid Culture was made.</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Mini Prep of “pTetoff #14-4,5,8” (22.08.2015)
+Mini Prep of “pTetoff #14-4,5,8”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,651: / Line 2,815: @@
 |4||ptetoff 14-8||biospec||8/22/2015 11:04:14 AM||367.5||ng/ul||7.350||3.969||1.85||2.11||DNA||50.00
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Cut Check I
@@ Line 2,665: / Line 2,831: @@
 |#14-8||0.7 ul||0.5 ul||0.5 ul||2.0 ul||16.3 ul||20.0 ul
 |}
+<html>
 <p>37˚C 2h</p>
+<a href="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_22_08_cutcheck_1.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/95/ATOMS-Turkiye_22_08_cutcheck_1.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
+</html>
 {| border="1" class="wikitable"
 !Cut Check II
@@ Line 2,683: / Line 2,850: @@
 |#14-8||0.7 ul||0.5 ul||0.5 ul||2.0 ul||16.3 ul||20.0 ul
 |}
+<html>
 <p>37˚C 30’’</p>
+<a href="https://static.igem.org/mediawiki/2015/3/36/ATOMS-Turkiye_22_08_cutcheck_2.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/3/36/ATOMS-Turkiye_22_08_cutcheck_2.jpeg" width="410" height="360"></a>
 <p>Result: negative</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Colony PCR of “pSB1C3 – T7 #4,5,6,8” (23.08.2015)
+Colony PCR of “pSB1C3 – T7 #4,5,6,8”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,706: / Line 2,875: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-GEL GÖRÜNTÜSÜ
 </div>
-</section>
+       <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('8');">Week 8<img
-       <section class="accordion">
+           src="  https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="8" class="tiger"></a>
-          <div>
+Digestion of “pTRE #12-2”
-            <input id"august-week4" name="august-week4" type="checkbox" />
-            <label for="august-week4">Week 1, 24.08.-31.08.</label>
-            <article class="ac-small">
 </html>
-Digestion of “pTRE #12-2” (24.08.2015)
 {| border="1" class="wikitable"
 !Digestion
@@ Line 2,723: / Line 2,888: @@
 |1x||6.4 ul||0.5 ul||0.5 ul||2.0 ul||10.6 ul||20.0 ul||
 |}
+<html>
 <p>37˚C 2h</p>
+<a href="https://static.igem.org/mediawiki/2015/4/44/ATOMS-Turkiye_23_08_ptre_digestion.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/44/ATOMS-Turkiye_23_08_ptre_digestion.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/5/52/ATOMS-Turkiye_23_08_ptre_digestion_devami.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/52/ATOMS-Turkiye_23_08_ptre_digestion_devami.jpeg" width="410" height="360"></a>
 <p>Result: Bands were at the expected section. Gel Extraction was made.</p>
@@ Line 2,729: / Line 2,897: @@
 Mini Prep
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,736: / Line 2,905: @@
 |2||ptre gel||biospec||8/24/2015 1:30:29 AM||15.3||ng/ul||0.306||0.164||1.87||0.65||DNA||50.00
 |}
+<html>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,746: / Line 2,917: @@
 |2||ptre||biospec||8/24/2015 1:29:38 AM||13.7||ng/ul||0.275||0.145||1.90||0.10||DNA||50.00
 |}
+<html>
 <br>
-Digestion of “TEV-Protease pET45/pSB1C3 T7/pColA (24.08.2015)
+</html>
-{| border="1" class="sortable"
+Digestion of “TEV-Protease pET45/pSB1C3 T7/pColA
+{| border="1" class="wikitable"
 !Digestion
 |-
@@ Line 2,757: / Line 2,930: @@
 |1x||5.86 ul||0.5 ul||0.5 ul||2.0 ul||11.14 ul||20.0 ul||
 |}
+<html>
 <p>37˚C 3h</p>
 <br>
-Ligation of “pCAGop with pTRE #12-2” (24.08.2015)
+Ligation of “pCAGop with pTRE #12-2”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,769: / Line 2,944: @@
 |1x||0.6 ul||6.6 ul||1.0 ul||2.0 ul||2.0 ul||9.8 ul||20.0 ul
 |}
+<htm>
 <p>Transformation was made.</p>
 <br>
-Cut Check “pSB1C3-T7 #4,5,6,8” (24.08.2015)
+Cut Check “pSB1C3-T7 #4,5,6,8”
-{| border="1" class="sortable"
+</html>
+{| border="1" class="wikitable"
 !Cut Check!!!!!!!!!!!!
 |-
@@ Line 2,781: / Line 2,958: @@
 |1x||3.5 ul||1.0 ul||1.0 ul||2.0 ul||12.5 ul||20.0 ul
 |}
+<html>
 <p>30’ digestion</p>
+<a href="https://static.igem.org/mediawiki/2015/7/70/ATOMS-Turkiye_25_08_psb1c3_cutcheck.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/70/ATOMS-Turkiye_25_08_psb1c3_cutcheck.jpeg" width="410" height="360"></a>
 <br>
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,794: / Line 2,974: @@
 |3||#9-5-9||biospec||8/25/2015 1:28:30 PM||37.9||ng/ul||0.758||0.375||2.02||2.19||DNA||50.00
 |}
+<html>
 <br>
-Colony PCR of “pTRE #13” (25.08.2015)
+Colony PCR of “pTRE #13”
+<htm>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,814: / Line 2,996: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
-GEL GÖRÜNTÜSÜ + pTRE13 cut check görüntüsü
+<html>
+<a href="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_25_08_ptre_13.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_25_08_ptre_13.jpeg" width="410" height="360"></a>
 <br>
-Colony PCR of “pCAG-DsRed” (25.08.2015)
+Colony PCR of “pCAG-DsRed”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,835: / Line 3,019: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
 <p>Result: Bands weren’t at the expected section.</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Cut Check of „pSB1C3 – TlpB“ (25.05.2015)
+Cut Check of „pSB1C3 – TlpB“
+</html>
 {| border="1" class="wikitable"
 !Cut Check
@@ Line 2,850: / Line 3,035: @@
 |#8-3||3.1 ul||0.5 ul||2.0 ul||14.4 ul||20.0 ul||
 |}
+<html>
 <p>7˚C 35’</p>
+<a href="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_25_08_ptre_13.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_25_08_ptre_13.jpeg" width="410" height="360"></a>
 <p>The colonies will be made glycerol stock.</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Ligation of “Damp-Pex” (25.08.2015)
+Ligation of “Damp-Pex”
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,866: / Line 3,053: @@
 |#9-10||3.87 ul||1.0 ul||2.0 ul||13.13 ul||20.0 ul||||
 |}
+<html>
 <p>37˚C 3h</p>
 <br>
+</html>
 {| border="1" class="wikitable"
 !Ligation
@@ Line 2,877: / Line 3,066: @@
 |#9-5||10.0 ul||14.4 ul||1.0 ul||3.0 ul||1.6 ul||30.0 ul||
 |}
+<html>
 <p>22˚C 1.5h</p>
 Transformation was made.
@@ Line 2,882: / Line 3,072: @@
 <br>
-Colony PCR of “pCAGop-DsRed” (26.08.2015)
+Colony PCR of “pCAGop-DsRed”
+</html>
 {| border="1" class="wikitable"
 !Colony PCR
@@ Line 2,899: / Line 3,090: @@
 |Time||5’||30’’||30’’||1.5’||5’||35x
 |}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/f/f6/ATOMS-Turkiye_26_08_pcaop_dsred.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/f/f6/ATOMS-Turkiye_26_08_pcaop_dsred.jpeg" width="410" height="360"></a>
 <p>Result: 2 colonie will be made liquid culture and streak plate. Ligation and transformation will be repeated.</p>
-GEL GÖRÜNTÜSÜ
 <br>
-Mini Prep of “pTRE #13-3,5” (26.08.2015)
+Mini Prep of “pTRE #13-3,5”
+</html>
 {| border="1" class="wikitable"
 !#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
@@ Line 2,914: / Line 3,107: @@
 |3||ptre 13-5 ||biospec||8/26/2015 4:58:06 PM||76.0||ng/ul||1.520||0.776||1.96||1.48||DNA||50.00
 |}
+<html>
 <br>
 Colony PCR of “pColA – Damp-Pex, pSB1C3 – TEV
+</html>
+{| border="1" class="wikitable"
+!Colony PCR “pColA – Damp-Pex”
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|10x||25.0 ul||25.0 ul||10.0 ul||10.0 ul||5.0 ul||2.0 ul||123.0 ul||||200.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/4/41/ATOMS-Turkiye_26_08_pcag_9%2C10.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/41/ATOMS-Turkiye_26_08_pcag_9%2C10.jpeg" width="410" height="360"></a>
+<br>
+Colony PCR “pSB1C3 – TEV Protease”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR “pSB1C3 – TEV Protease”
+|-
+|||MgCl₂||(NH₄)2SO₄||VR||VF||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|10x||25.0 ul||25.0 ul||10.0 ul||10.0 ul||5.0 ul||2.0 ul||123.0 ul||||200.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/4/41/ATOMS-Turkiye_26_08_pcag_9%2C10.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/41/ATOMS-Turkiye_26_08_pcag_9%2C10.jpeg" width="410" height="360"></a>
+<p>Result: negative</p>
+<br>
+Colony PCR “pSB1C3 – TEV Protease” – Repeat
+</html>
+{| border="1" class="wikitable"
+!Colony PCR “pSB1C3 – TEV Protease”
+|-
+|||MgCl₂||(NH₄)2SO₄||VR||VF||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|15x||37.5 ul||37.5 ul||15.0 ul||15.0 ul||7.5 ul||3.0 ul||184.5 ul||||300.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/5/50/ATOMS-Turkiye_27_08_psb1c3_t7_tev.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/50/ATOMS-Turkiye_27_08_psb1c3_t7_tev.jpeg" width="410" height="360"></a>
+<p>Result: negative</p>
+<br>
+Colony PCR of “pTRE – Luc #14”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||pTRE Luc rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|14x||35.0 ul||35.0 ul||14.0 ul||14.0 ul||7.0 ul||2.8 ul||172.2 ul||||280.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/a/a7/ATOMS-Turkiye_27_08_phre_luc_14.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a7/ATOMS-Turkiye_27_08_phre_luc_14.jpeg" width="410" height="360"></a>
+<p>Result: Bands weren’t at the expected section.</p>
+<br>
+Gel Extraction of “Damp-Pex”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/27/2015 9:39:17 PM||1.1||ng/ul||0.022||0.009||2.36||1.00||DNA||50.00
+|-
+|2||damp-pex||biospec||8/27/2015 9:40:04 PM||8.2||ng/ul||0.164||0.090||1.82||0.05||DNA||50.00
+|}
+<html>
+<br>
+Colony PCR of “pCAGop-DsRed #12”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|14x||35.0 ul||35.0 ul||14.0 ul||14.0 ul||7.0 ul||2.8 ul||172.2 ul||||280.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/b/b0/ATOMS-Turkiye_27_08_12.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/b/b0/ATOMS-Turkiye_27_08_12.jpeg" width="410" height="360"></a>
+<p>Result: Negative.</p>
+<br>
+Ligation of “pCAGop-DsRed”
+</html>
+{| border="1" class="wikitable"
+!Ligation
+|-
+|||pCAG (18.38 ng/ul)||pTRE #12 (100 ng/ul)||T4 DNA Ligase||T4 DNA Ligase Buffer||ddH₂O||Total
+|-
+|1x||0.3 ul||6.6 ul||1.0 ul||2.0 ul||10.1 ul||20.0 ul
+|}
+<html>
+<p>22˚C 1.30h</p>
+<p>Transformation was made.</p>
+<br>
+Colony PCR of „pSB1C3-T7 #5“
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|8x||20.0 ul||20.0 ul||8.0 ul||8.0 ul||4.0 ul||1.6 ul||98.4 ul||||160.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/0/0f/ATOMS-Turkiye_25_08_t7_5.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/0/0f/ATOMS-Turkiye_25_08_t7_5.jpeg" width="410" height="360"></a>
+<p>Result: #1-1 Liquid Culture was made.</p>
+<br>
+Digestion of “pSB1C3-T7 TEV Protease (17. and 18. Colony)”
+</html>
+{| border="1" class="sortable"
+!Digestion
+|-
+|||DNA (500 ng/ul)||NotI-HF||Cut Smart Buffer||ddH₂O||Total
+|-
+|17||6.0 ul||0.5 ul||2.0 ul||11.5 ul||20.0 ul
+|-
+|18||13.0 ul||0.5 ul||2.0 ul||4.5 ul||20.0 ul
+|}
+<html>
+<p>37˚C 3h</p>
+<p>65˚C 20’’ Heat Inactivation</p>
+<p>Result: negative</p>
+<br>
+Digestion of “pColA”
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||pColA (300 ng/ul)||NotI||Buffer||ddH₂O||Total
+|-
+|1x||11.76 ul||0.5 ul||2.0 ul||5.74 ul||20.0 ul
+|}
+<html>
+<p>37˚C 3h</p>
+<p>1.2 ul rSAP</p>
+<p>37˚C 1h</p>
+<p>20’’ Heat Inactivation</p>
+<br>
+Colony PCR of “pCAGop-DsRed #12-2. Colony streak”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|12x||30.0 ul||30.0 ul||12.0 ul||12.0 ul||6.0 ul||2.4 ul||147.6 ul||||240.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/5/54/ATOMS-Turkiye_28_08_pcagop_streak.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/54/ATOMS-Turkiye_28_08_pcagop_streak.jpeg" width="410" height="360"></a>
+<p>Result: Negative</p>
+<br>
+Cut Check of „pSB1C3-T7 #5-31“
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA||EcoRI (FD)||PstI (FD)||Fast Digest Buffer||ddH₂O||Total
+|-
+|1x||3.0 ul||1.0 ul||1.0 ul||2.0 ul||13.0 ul||20.0 ul
+|}
+<html>
+Digestion of “pSB1C3 #9”
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||DNA (500 ng/ul)||NotI||Cut Smart Buffer||ddH₂O||Total||
+|-
+|1x||3.0 ul||1.0 ul||2.0 ul||14.0 ul||20.0 ul||
+|}
+<html>
+<p>3h was digested</p>
+<a href="https://static.igem.org/mediawiki/2015/8/8c/ATOMS-Turkiye_27_08_not1_digestion.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/8/8c/ATOMS-Turkiye_27_08_not1_digestion.jpeg" width="410" height="360"></a>
+<p>Result: #9-5 Bands were at the expected section</p>
+<br>
+Ligation of “pColA #9”
+</html>
+{| border="1" class="wikitable"
+!Ligation
+|-
+|||pColA||#9||T4 DNA Ligase||T4 DNA Ligase Buffer||ddH₂O||Total
+|-
+|1x||7.5 ul||9.2 ul||1.0 ul||2.0 ul||0.3 ul||20.0 ul
+|}
+<html>
+<p>2h was ligasted</p>
+<br>
+Mini Prep of “pCAG-DsRed #12”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/28/2015 7:23:31 PM||0.5||ng/ul||0.010||-0.006||-1.58||-1.46||DNA||50.00
+|-
+|2||pcag op-dsred||biospec||8/28/2015 7:24:38 PM||92.3||ng/ul||1.846||1.105||1.67||0.79||DNA||50.00
+|-
+|3||pcag op-dsred||biospec||8/28/2015 7:26:20 PM||67.4||ng/ul||1.348||0.702||1.92||1.35||DNA||50.00
+|}
+<html>
+<br>
+Cut Check “pCAGop-DsRed #12”
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA||EcoRI-HF||XhoI (NEB)||Cut Smart Buffer||ddH₂O||Total
+|-
+|1x||3.7 ul||0.5 ul||0.5 ul||2.0 ul||13.3 ul||20.0 ul
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_31%2C07%2C10%2Ccolony.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/92/ATOMS-Turkiye_31%2C07%2C10%2Ccolony.jpeg" width="410" height="360"></a>
+<p>Result: negative</p>
+<br>
+Cut Check “pCAGop-DsRed #12” - Repeat
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA||EcoRI-HF||XhoI (NEB)||Cut Smart Buffer||ddH₂O||Total
+|-
+|1x||3.7 ul||0.5 ul||0.5 ul||2.0 ul||13.3 ul||20.0 ul
+|}
+<html>
+<p>Result: negative</p>
+<br>
+Colony PCR of „pTEToff and pTEToff N term“ (28.08.2015)
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||CMV rv||pTRE Luc fw||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|26x||65.0 ul||65.0 ul||26.0 ul||26.0 ul||13.0 ul||5.2 ul||319.8 ul||||520.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/7/77/ATOMS-Turkiye_28_08_nterm.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/77/ATOMS-Turkiye_28_08_nterm.jpeg" width="410" height="360"></a>
+<p>Result: positive</p>
+<br>
+Mini Prep of “pSB1C3-T7 TEV Protease”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/28/2015 5:55:09 PM||0.0||ng/ul||-0.001||-0.010||0.10||-1.29||DNA||50.00
+|-
+|2||tev  psb1c3-t7/17||biospec||8/28/2015 5:56:45 PM||81.8||ng/ul||1.637||0.848||1.93||2.08||DNA||50.00
+|-
+|3||tev  psb1c3-t7/18||biospec||8/28/2015 5:59:01 PM||38.5||ng/ul||0.771||0.380||2.03||2.03||DNA||50.00
+|}
+<html>
+<br>
+Mini Prep of “pSB1C3-T7 TEV Protease”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/29/2015 8:08:11 PM||-0.8||ng/ul||-0.016||-0.019||0.83||0.68||DNA||50.00
+|-
+|2||psb1c3-t7/tev17||biospec||8/29/2015 8:09:26 PM||135.4||ng/ul||2.709||1.355||2.00||1.68||DNA||50.00
+|-
+|3||psb1c3-t7/tev18||biospec||8/29/2015 8:11:06 PM||229.1||ng/ul||4.581||2.193||2.09||2.40||DNA||50.00
+|}
+<html>
+<br>
+Mini Prep of “pCAGop-DsRed #1-1”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/30/2015 11:05:33 AM||0.2||ng/ul||0.003||-0.012||-0.25||-0.27||DNA||50.00
+|-
+|2||pcag op-dsred||biospec||8/30/2015 11:07:31 AM||79.8||ng/ul||1.595||0.823||1.94||1.72||DNA||50.00
+|}
+<html>
+<br>
+Cut Check of “pCAGop-DsRed #1-1”
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||pCAGop-DsRed (250 ng/ul)||EcoRI-HF||XhoI (NEB)||Cut Smart Buffer||ddH₂O||Total
+|-
+|1x||3.2 ul||0.5 ul||0.5 ul||2.0 ul||13.8 ul||20.0 ul
+|}
+</html>
+<p>37˚C 3h</p>
+<a href="https://static.igem.org/mediawiki/2015/a/a5/ATOMS-Turkiye_30_08_pcagop_dsred.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a5/ATOMS-Turkiye_30_08_pcagop_dsred.jpeg" width="410" height="360"></a>
+<p>Result: negative</p>
+<br>
+Digestion of “pSB1C3-T7 TEV Protease”
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||Insert||NotI||Cut Smart Buffer||ddH₂O||Total
+|-
+|17||3.7 ul||0.25 ul||2.0 ul||14.05 ul||20.0 ul
+|-
+|18||2.2 ul||0.25 ul||2.0 ul||15.55 ul||20.0 ul
+|}
+<html>
+<p>37˚C 3h</p>
+<p>Result: Bands were at the expected section. Gel extraction was made.</p>
+<br>
+Ligation of “pSB1C3-T7 TEV Protease”
+</html>
+{| border="1" class="wikitable"
+!Ligation
+|-
+|||Vector (60 ng/ul)||Insert (29.11 ng/ul)||T4 DNA Buffer||T4 DNA Buffer Ligase||ddH₂O||Total
+|-
+|1x||7.0 ul||8.7 ul||2.0 ul||1.0 ul||1.3 ul||20.0 ul
+|}
+<html>
+<p>22˚C 1.5h</p>
+<p>Transformation was made.</p>
+<br>
+Gel Extraction
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||8/30/2015 5:28:51 PM||0.0||ng/ul||-0.001||-0.005||0.15||0.03||DNA||50.00
+|-
+|2||psb1c3-t7||biospec||8/30/2015 5:28:05 PM||5.6||ng/ul||0.113||0.061||1.85||0.17||DNA||50.00
+|}
+<html>
+<br>
+Colony PCR of “pColA – TEV”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pColA fw||pColA rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|16x||40.0 ul||40.0 ul||16.0 ul||16.0 ul||8.0 ul||3.2 ul||196.8 ul||||320.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<p>Result: negative</p>
+<br>
+Colony PCR of “pColA – TEV” – Repeat
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pColA fw||pColA rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|22x||55.0 ul||55.0 ul||22.0 ul||22.0 ul||11.0 ul||3.2 ul||270.6 ul||||440.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<p>Result: negative</p>
+<br>
+Digestion of “PsicA for pSB1C3 and invF-sicA for ColA” (31.08.2015)
+</html>
+{| border="1" class=wikitable"
+!Digestion of “PsicA and invF”
+|-
+|||DNA||EcoRI-HF||PstI||XbaI||SpeI||2.1 Buffer||Cut Smart Buffer||ddH₂O||Total
+|-
+|invF-sicA||10.0 ul||-||-||1.0 ul||1.0 ul||-||2.0 ul||6.0 ul||20.0 ul
+|-
+|PsicA||10.0 ul||1.0 ul||1.0 ul||-||-||2.0 ul||-||6.0 ul||20.0 ul
+|}
+<html>
+<p>37˚C 10h</p>
+<p>82˚C 20’ Heat Inactivation</p>
+<br>
+</html>
+{| border="1" class="wikitable"
+!Digestion of “pSB1C3-RFP and pColA-NotI”
+|-
+|||DNA||EcoRI (FD)||PstI (FD)||XbaI (FD)||SpeI (FD)||Fast Digest Buffer||ddH₂O||Total||
+|-
+|pSB1C3-RFP (1000 ng/ul)||2.5 ul||1.0 ul||1.0 ul||-||-||2.0 ul||13.5 ul||20.0 ul||
+|-
+|pColA-NotI (500 ng/ul)||5.0 ul||-||-||1.0 ul||1.0 ul||2.0 ul||11.0 ul||20.0 ul||
+|}
+<html>
+</div>
+</div>
+<h2 class="scroll">September</h2>
+<div id="content-div">
+.09.2015 Wiki meetings continue, we are making decisions together.
+.09.2015 What will we be wearing at the Giant Jamboree? Thinking about how to design our T-shirts.
+.09.2015 Team pictures mustn’t be left ends.
+.09.2015 We taught our little friends synthetic biology. Those kids were really funny when they came first, they were covering their faces because they were scared of being contaminated.
+.09.2015 Coloring our drawings is complete. They are better than original now. We still have wiki meetings, there are only 5 days to wiki-freeze!
+    <div style="margin-bottom:60px">
+     <section class="accordion">
+          <div>
+            <input id="september-week1" name="september-week1" type="checkbox" />
+            <label for="september-week1">Week 1, 01.09.-06.09.</label>
+            <article class="ac-small">
+Ligation of “ColA and pSB1C3”
+</html>
+{| border="1" class="wikitable"
+!Ligation
+|-
+|||Vector (100 ng/ul)||invF-sicA||psicA||T4 DNA Ligase||T4 DNA Ligase Buffer||ddH₂O||Total
+|-
+|ColA||8.5 ul||17.5 ul||-||1.0 ul||2.0 ul||-||30.0 ul
+|-
+|pSB1C3||9.44 ul||-||13.55 ul||1.0 ul||2.0 ul||3.0 ul||30.0 ul
+|}
+<html>
+<p>22˚C 2h</p>
+<br>
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/1/2015 4:10:17 AM||0.3||ng/ul||0.006||-0.007||-0.88||-0.78||DNA||50.00
+|-
+|2||colA ext||biospec||9/1/2015 4:11:28 AM||11.7||ng/ul||0.235||0.132||1.78||0.08||DNA||50.00
+|-
+|3||cola clean-up||biospec||9/1/2015 4:12:56 AM||7.2||ng/ul||0.143||0.078||1.84||0.06||DNA||50.00
+|-
+|4||psb1c3 ext||biospec||9/1/2015 4:14:40 AM||10.6||ng/ul||0.213||0.113||1.88||0.12||DNA||50.00
+|}
+<html>
+<p>Transformation will be made.</p>
+<br>
+Ligation of “pCAGop-DsRed”
+</html>
+{| border="1" class=wikitable"
+!Ligation
+|-
+|||pCAG||pTRE #12||T4 DNA Ligase||T4 DNA Ligase Buffer||ddH₂O||Total||
+|-
+|1x||0.3 ul||4.0 ul||1.0 ul||1.0 ul||13.7 ul||20.0 ul||
+|}
+<html>
+<p>Transformation with BL21.</p>
+<br>
+Digestion of “pSB1C3-T7 TEV and pColA
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||DNA||XhoI-HF||SpeI-HF||Cut Smart Buffer||RNAse||ddH₂O||Total
+|-
+|17 (Hand Made Solution)||10.0 ul||0.25 ul||0.25 ul||2.0 ul||0.2 ul||7.3 ul||20.0 ul
+|-
+|18 (Hand Made Solution)||10.0 ul||0.25 ul||0.25 ul||2.0 ul||0.2 ul||7.3 ul||20.0 ul
+|-
+|17 (Midi Prep Solution)||10.0 ul||0.25 ul||0.25 ul||2.0 ul||-||7.5 ul||20.0 ul
+|-
+|18 (Midi Prep Solution)||10.0 ul||0.25 ul||0.25 ul||2.0 ul||-||7.5 ul||20.0 ul
+|-
+|pColA (1000 ng/ul)||9.0 ul||0.5 ul||0.5 ul||2.0 ul||-||8.0 ul||
+|}
+<html>
+<p>37˚C 3h</p>
+<p>80˚C 20’ Heat Inactivation</p>
+<p>Cut Check was made.</p>
+<p>Result: pColA Bands were at the expected section. Midi Prep Solution is better.</p>
+<br>
+Colony PCR of “pCAGop-DsRed and pCMV-lacO”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|16x||40.0 ul||40.0 ul||16.0 ul||16.0 ul||8.0 ul||3.2 ul||196.8 ul||||320.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/d/d7/ATOMS-Turkiye_03_09_pcag_pcmv.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/d/d7/ATOMS-Turkiye_03_09_pcag_pcmv.jpeg" width="410" height="360"></a>
+<p>Result: negative. It will be repeated.</p>
+<br>
+Colony PCR of “invF-sicA and PsicA” (02.09.2015)
+<a href="https://static.igem.org/mediawiki/2015/5/58/ATOMS-Turkiye_02_09_2015.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/5/58/ATOMS-Turkiye_02_09_2015.jpeg" width="410" height="360"></a>
+<p>Result: PsicA: 1, 2, 6, 8, 9, 10, 11 Liquid Culture will be made.</p>
+<br>
+Digestion of “invF-sicA for pSB1C3 and ColA”
+<p>DNA 10.0 ul + rSAP 1.0 ul / 37˚C 1h / 80˚C 20’</p>
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||DNA||EcoRI-HF||PstI||XbaI||SpeI||2.1 Buffer||Cut Smart Buffer||ddH₂O||Total
+|-
+|pSB1C3||10.0 ul||0.4 ul||0.4 ul||-||-||2.0 ul||-||7.2 ul||20.0 ul
+|-
+|ColA||10.0 ul||-||-||0.4 ul||0.4 ul||-||2.0 ul||7.2 ul||20.0 ul
+|}
+<html>
+<p>37˚C overnight</p>
+<br>
+Mini Prep of “PsicA – pSB1C3”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/3/2015 8:34:29 PM||0.8||ng/ul||0.016||0.000||116.17||0.85||DNA||50.00
+|-
+|2||psb1c3-psica 1||biospec||9/3/2015 8:35:32 PM||130.5||ng/ul||2.610||1.370||1.91||2.04||DNA||50.00
+|-
+|3||psb1c3-psica 2||biospec||9/3/2015 8:36:34 PM||140.9||ng/ul||2.818||1.457||1.93||2.16||DNA||50.00
+|-
+|4||psb1c3-psica 6||biospec||9/3/2015 8:37:28 PM||178.5||ng/ul||3.569||1.864||1.92||2.20||DNA||50.00
+|-
+|5||psb1c3-psica 8||biospec||9/3/2015 8:38:24 PM||98.7||ng/ul||1.974||1.021||1.93||2.13||DNA||50.00
+|-
+|6||psb1c3-psica 9||biospec||9/3/2015 8:39:21 PM||237.0||ng/ul||4.741||2.476||1.91||2.13||DNA||50.00
+|-
+|7||psb1c3-psica 10||biospec||9/3/2015 8:40:35 PM||109.0||ng/ul||2.181||1.127||1.94||2.05||DNA||50.00
+|-
+|8||||biospec||9/3/2015 8:41:51 PM||109.5||ng/ul||2.189||1.134||1.93||1.97||DNA||50.00
+|-
+|9||blank||biospec||9/3/2015 8:43:10 PM||1.3||ng/ul||0.025||0.003||9.26||0.73||DNA||50.00
+|-
+|10||psb1c3-psica 11||biospec||9/3/2015 8:44:14 PM||50.4||ng/ul||1.008||0.518||1.95||1.97||DNA||50.00
+|}
+<html>
+<br>
+Cut Check of “PsicA – pSB1C3”
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA||EcoRI (FD)||PstI (FD)||Fast Digest Buffer||ddH₂O||Total
+|-
+|1||1.9 ul||0.35 ul||0.35 ul||2.0 ul||15.4 ul||20.0 ul
+|-
+|2||1.8 ul||0.35 ul||0.35 ul||2.0 ul||15.5 ul||20.0 ul
+|-
+|6||1.4 ul||0.35 ul||0.35 ul||2.0 ul||15.9 ul||20.0 ul
+|-
+|8||2.5 ul||0.35 ul||0.35 ul||2.0 ul||14.8 ul||20.0 ul
+|-
+|9||1.1 ul||0.35 ul||0.35 ul||2.0 ul||16.2 ul||20.0 ul
+|-
+|10||2.3 ul||0.35 ul||0.35 ul||2.0 ul||15.0 ul||20.0 ul
+|-
+|11||5.0 ul||0.35 ul||0.35 ul||2.0 ul||12.3 ul||20.0 ul
+|}
+<html>
+<p>37˚C 35’</p>
+<br>
+Ligation of “invF and pSB1C3/pColA”
+</html>
+{| border="1" class="wikitable"
+!Ligation!!!!!!!!!!!!!!
+|-
+|||Vector (100 ng/ul)||invF/sicA||invF/sicA||T4 DNA Ligase||T4 DNA Ligase Buffer||ddH₂O||Total
+|-
+|ColA (-)||11.6 ul||-||-||1.0 ul||3.2 ul||16.6 ul||32.2 ul
+|-
+|ColA (+)||11.6 ul||14.40 ul||-||3.2 ul||3.4 ul||2.2 ul||34.8 ul
+|-
+|pSB1C3||9.4 ul||-||14.40 ul||1.0 ul||3.0 ul||2.2 ul||30.0 ul
+|}
+<html>
+<p>RT 1h </p>
+<p>Transformation will be made.</p>
+<br>
+Colony PCR of “pCMV-Lacop-DsRed and pCAGop-DsRed”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|15x||37.5 ul||37.5 ul||15.0 ul||15.0 ul||7.5 ul||3.0 ul||184.5 ul||||300.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/9/9e/ATOMS-Turkiye_04_09_dsred_1%2C12.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/9/9e/ATOMS-Turkiye_04_09_dsred_1%2C12.jpeg" width="410" height="360"></a>
+<p>Result: Bands were at the expected section. Liquid Culture was made.</p>
+<br>
+Mini Prep of „pCMV-Lacop-DsRed and pCAGop-DsRed“
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/5/2015 10:42:13 AM||-0.1||ng/ul||-0.003||-0.015||0.18||0.15||DNA||50.00
+|-
+|2||pcmv-lacop-dsred 1||biospec||9/5/2015 10:44:11 AM||68.4||ng/ul||1.369||0.690||1.98||1.76||DNA||50.00
+|-
+|3||pcmv-lacop-dsred 2||biospec||9/5/2015 10:45:12 AM||51.2||ng/ul||1.024||0.499||2.05||1.77||DNA||50.00
+|-
+|4||pcmv-lacop-dsred 3||biospec||9/5/2015 10:46:09 AM||78.5||ng/ul||1.570||0.793||1.98||1.98||DNA||50.00
+|-
+|5||pcmv-lacop-dsred 4||biospec||9/5/2015 10:47:04 AM||47.7||ng/ul||0.954||0.460||2.07||1.95||DNA||50.00
+|-
+|6||Pcagop-dsred 1||biospec||9/5/2015 10:48:08 AM||499.6||ng/ul||9.991||5.290||1.89||2.20||DNA||50.00
+|}
+<html>
+<br>
+Cut Check of „pCMV-Lacop-DsRed and pCAGop-DsRed“
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA||BamHI||XhoI||EcoRI||Cut Smart Buffer||ddH₂O||Total
+|-
+|1||4.4 ul||0.5 ul||0.5 ul||-||2.0 ul||12.6 ul||20.0 ul
+|-
+|2||5.9 ul||0.5 ul||0.5 ul||-||2.0 ul||11.1 ul||20.0 ul
+|-
+|3||3.9 ul||0.5 ul||0.5 ul||-||2.0 ul||13.1 ul||20.0 ul
+|-
+|4||6.3 ul||0.5 ul||0.5 ul||-||2.0 ul||10.7 ul||20.0 ul
+|-
+|pCAGop-DsRed||1.0 ul||0.5 ul||-||0.5 ul||2.0 ul
+|-
+|||16.0 ul||20.0 ul
+|}
+<html>
+<p>37˚C 3h</p>
+<a href="https://static.igem.org/mediawiki/2015/3/39/ATOMS-Turkiye_05_09_cutcheck_14.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/3/39/ATOMS-Turkiye_05_09_cutcheck_14.jpeg" width="410" height="360"></a>
+<p>Result: 1-2-3-4 is positive.</p>
+</div>
+ <a href="#" class="clickme" id="toggle" onclick="toggle_visibility('9');">Week 9<img src="https://static.igem.org/mediawiki/2014/f/f8/LMU14_arrow_down.png" id="9" class="tiger"></a>
+Cut Check of “invF and sicA”
+</html>
+{| border="1" class="wikitable"
+!Cut Check
+|-
+|||DNA (250 ng/ul)||EcoRI (FD)||PstI (FD)||Fast Digest Buffer||ddH₂O||Total||
+|-
+|1x||5.0 ul||0.5 ul||0.5 ul||2.0 ul||12.0 ul||20.0 ul||
+|}
+<html>
+<p>37˚C 35’</p>
+<a href="https://static.igem.org/mediawiki/2015/3/39/ATOMS-Turkiye_06_09_correct.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/3/39/ATOMS-Turkiye_06_09_correct.jpeg" width="410" height="360"></a>
+<br>
+Mini Prep
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/7/2015 6:34:56 PM||-0.1||ng/ul||-0.003||-0.005||0.60||0.11||DNA||50.00
+|-
+|2||#18-11||biospec||9/7/2015 6:36:20 PM||79.8||ng/ul||1.597||0.843||1.89||1.93||DNA||50.00
+|-
+|3||#18-2||biospec||9/7/2015 6:37:48 PM||74.9||ng/ul||1.497||0.787||1.90||2.01||DNA||50.00
+|-
+|4||elution blank ||biospec||9/7/2015 6:39:44 PM||0.3||ng/ul||0.005||-0.004||-1.51||0.68||DNA||50.00
+|-
+|5||#18-5 elution||biospec||9/7/2015 6:40:49 PM||57.7||ng/ul||1.154||0.604||1.91||1.91||DNA||50.00
+|}
+<html>
+<br>
+Digestion of “#18-2,5”
+</html>
+{| border="1" class="wikitable"
+!Digestion
+|-
+|||DNA (500 ng/ul)||XbaI||SpeI-HF||Cut Smart Buffer||ddH₂O||Total
+|-
+|#18-2||6.66 ul||0.4 ul||0.4 ul||2.0 ul||8.54 ul||20.0 ul
+|-
+|#18-5||8.66 ul||0.4 ul||0.4 ul||2.0 ul||10.54 ul||20.0 u
+|}
+<html>
+<p>37˚C 40’</p>
+<br>
+Ligation
+</html>
+{| border="1" class="wikitable"
+!Ligation
+|-
+|||pSB1C3-invF (175 ng/ul)||ColA (100 ng/ul)||T4 DNA Ligase ||T4 DNA Ligase Buffer||ddH₂O||Total
+|-
+|1||7.0 ul||-||1.0 ul||2.0 ul||9.17 ul||20.0 ul
+|-
+|2||-||7.0 ul||1.0 ul||2.0 ul||5.0 ul||20.0 ul
+|}
+<html>
+<p>Transformation will be made.</p>
+<br>
+Mini Prep of “pSB1C3 – TEV”
+</html>
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/8/2015 10:39:08 AM||-0.1||ng/ul||-0.003||-0.009||0.30||0.13||DNA||50.00
+|-
+|2||psb1c3-tev 17||biospec||9/8/2015 10:40:15 AM||125.5||ng/ul||2.510||1.331||1.89||2.16||DNA||50.00
+|-
+|3||psb1c3-tev 18||biospec||9/8/2015 10:42:45 AM||111.9||ng/ul||2.238||1.195||1.87||2.14||DNA||50.00
+|}
+<html>
+<br>
+Digestion of “pSB1C3 – TEV 17/18 and pColA-Toehold”
+</html>
+{| border="1" class="wikitable"
+!Digestion of “pSB1C3 – TEV 17/18”
+|-
+|||DNA (1000 ng/ul)||XbaI (FD)||SpeI (FD)||Fast Digest Buffer||ddH₂O||Total
+|-
+|17||8.0 ul||1.0 ul||1.0 ul||2.0 ul||8.0 ul||20.0 ul
+|-
+|18||9.0 ul||1.0 ul||1.0 ul||2.0 ul||7.0 ul||20.0 ul
+|}
+<html>
+<p>37˚C 1h</p>
+<br>
+</html>
+{| border="1" class="wikitable"
+!Digestion of “pColA-Toehold”
+|-
+|||DNA (1000 ng/ul)||XbeI (FD)||SpeI (FD)||Fast Digest Buffer||ddH₂O||Total
+|-
+|1x||16.0 ul||1.0 ul||1.0 ul||2.0 ul||-||20.0 ul
+|}
+<html>
+<p>37˚C 1h</p>
+<br>
+Colony PCR of “ pSB1C3-TEV 17/18”
+</html>
+{| border="1" class="wikitable"
+!Colony PCR
+|-
+|||MgCl₂||(NH₄)2SO₄||pTRE Luc fw||SV40 rv||dNTP||Tag||ddH₂O||DNA||Total
+|-
+|1x||2.5 ul||2.5 ul||1.0 ul||1.0 ul||0.5 ul||0.2 ul||12.3 ul||5.0 ul||25.0 ul
+|-
+|25x||61.5 ul||61.5 ul||25.0 ul||25.0 ul||12.5 ul||5.0 ul||307.5 ul||||498.0 ul
+|}
+{| border="1" class="wikitable"
+!Cycling
+|-
+|||95˚C||95˚C||56˚C||72˚C||72˚C||Cycle
+|-
+|Time||5’||30’’||30’’||1.5’||5’||35x
+|}
+<html>
+<a href="https://static.igem.org/mediawiki/2015/4/4c/ATOMS-Turkiye_08_09_tev_17_18.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/4c/ATOMS-Turkiye_08_09_tev_17_18.jpeg" width="410" height="360"></a>
+<p>Result: negative</p>
+<br>
+Digestion of “pColA / pSB1C3 #9 / pColA-Toehold #2-8 / pSB1C3 T7 #10-17 / #18”
+</html>
+{| border="1" class="wikitable"
+!Digestion of
+|-
+|||DNA (1000 ng/ul)||XbaI (FD)||SpeI (FD)||Cut Smart Buffer||ddH₂O||Total
+|-
+|pColA||4.5 ul||0.5 ul||0.5 ul||2.0 ul||12.5 ul||20.0 ul
+|-
+|pSB1C3 #9||1.7 ul||0.5 ul||0.5 ul||2.0 ul||15.3 ul||20.0 ul
+|-
+|pColA-Toehold #2-8||16.0 ul||0.5 ul||0.5 ul||2.0 ul||1.0 ul||20.0 ul
+|-
+|pSB1C3 T7 #10-17||3.3 ul||0.5 ul||0.5 ul||2.0 ul||13.7 ul||20.0 ul
+|-
+|#18||3.0 ul||0.5 ul||0.5 ul||2.0 ul||14.0 ul||20.0 ul
+|}
+<html>
+<p>37˚C 3h<7p>
+<p>pColA-Toehold #2-8: 1ul rSAP / 37˚C 1h / 80˚C 20’</p>
+<a href="https://static.igem.org/mediawiki/2015/4/42/ATOMS-Turkiye_10_09_pcola_kesim_x.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/4/42/ATOMS-Turkiye_10_09_pcola_kesim_x.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_10_09_tev_protease_cola_kesim.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/7/75/ATOMS-Turkiye_10_09_tev_protease_cola_kesim.jpeg" width="410" height="360"></a>
+<a href="https://static.igem.org/mediawiki/2015/a/a4/ATOMS-Turkiye_10_09_xba.jpeg" data-lightbox="image-1" class="img="left"><img src="https://static.igem.org/mediawiki/2015/a/a4/ATOMS-Turkiye_10_09_xba.jpeg" width="410" height="360"></a>
+<p>Result: pColA and #10 gel extraction will be made.</p>
+<br>
+Gel extraction
+</html>
+{| border="1" class=wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/10/2015 7:29:27 PM||-0.2||ng/ul||-0.003||-0.009||0.37||0.28||DNA||50.00
+|-
+|2||psb1c3-#9||biospec||9/10/2015 7:31:01 PM||308.0||ng/ul||6.160||3.182||1.94||2.10||DNA||50.00
+|}
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/10/2015 8:13:13 PM||0.3||ng/ul||0.005||-0.003||-1.70||-2.25||DNA||50.00
+|-
+|2||psb1c3 t7-10 (17)||biospec||9/10/2015 8:14:54 PM||152.2||ng/ul||3.045||1.612||1.89||2.25||DNA||50.00
+|-
+|3||psb1c3 t7-10 (18)||biospec||9/10/2015 8:16:02 PM||164.6||ng/ul||3.291||1.737||1.90||2.23||DNA||50.00
+|}
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/11/2015 10:05:05 PM||0.1||ng/ul||0.002||-0.017||-0.13||-0.11||DNA||50.00
+|-
+|2||pcola (notI)||biospec||9/11/2015 10:07:08 PM||40.4||ng/ul||0.807||0.399||2.03||1.75||DNA||50.00
+|-
+|3||psb1c3 #9||biospec||9/11/2015 10:08:33 PM||76.0||ng/ul||1.520||0.789||1.93||2.17||DNA||50.00
+|-
+|4||psb1c3-t7 #10||biospec||9/11/2015 10:09:55 PM||71.5||ng/ul||1.431||0.721||1.99||2.15||DNA||50.00
+|-
+|5||blank ||biospec||9/11/2015 10:14:04 PM||-0.4||ng/ul||-0.007||-0.020||0.35||0.32||DNA||50.00
+|-
+|6||psb1c3-t7 #10||biospec||9/11/2015 10:15:01 PM||70.4||ng/ul||1.408||0.727||1.94||2.16||DNA||50.00
+|}
+{| border="1" class="wikitable"
+!#!!Sample ID!!User name!!Date and Time!!Nucleic Acid Conc.!!Unit!!A260!!A280!!260/280!!260/230!!Sample Type!!Factor
+|-
+|1||blank||biospec||9/11/2015 2:24:30 AM||0.6||ng/ul||0.011||0.002||4.95||1.18||DNA||50.00
+|-
+|2||Pcola-2||biospec||9/11/2015 2:26:25 AM||145.0||ng/ul||2.901||1.398||2.08||2.04||DNA||50.00
+|}
+<html>
+</section>
+</div>
+</div>
+<script src="https://2015.igem.org/Team:ATOMS-Turkiye/shortcut?action=raw&ctype=text/javascript"></script>
+</html>