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Sample GSM9301

Query DataSets for GSM9301

Status

Public on Sep 03, 2003

Title

By2Cy3

Sample type

RNA

Channel 1

Source name

reference pool of BY4716 strain

Organism

Saccharomyces cerevisiae

Extracted molecule

total RNA

Channel 2

Source name

independent culture of BY4716

Organism

Saccharomyces cerevisiae

Extracted molecule

total RNA

Description

RNA from the lab strain BY4716 (S288c general background).
See Yvert et al. Nature Genetics 2003.
NOTE: REFERENCE SAMPLE IS DIFFERENT FROM THE ONE USED
IN Brem et al. Science 2002 296:752-755. It corresponds
to the same strain but comes from an independent culture.
Lot batch =

Submission date

Sep 02, 2003

Last update date

May 28, 2005

Contact name

Gael Yvert

E-mail(s)

yvert@insa-tlse.fr

Phone

011-33-5-61-55-94-25

Organization name

Fred Hutchinson Cancer Research Center

Lab

Kruglyak

Street address

City

Seattle

State/province

ZIP/Postal code

98109

Country

USA

Platform ID

GPL118

Series (1)

GSE617

Trans-acting regulatory variation in Saccharomyces cerevisiae

Data table header descriptions
ID_REF	spot number from platform GPL118 (yeast cDNA arrays manufactured
CH1_MEAN	median signal at 635 nm
CH1_BKD_MEAN	median background signal at 635 nm
CH2_MEAN	median signal at 532 nm
CH2_BKD_MEAN	median background signal at 532 nm
VALUE	First compute l = log2 (median 635 - median background 635) - log2 (median 532 - median background 532). Do this for every spot on chip c. Next compute m, the mean of these l values over all spots on chip c. Now subtract m from every l value on chip c to get the final normalized log ratio n. If the SAMPLE has Cy3 in the name, n is the VALUE here; if the SAMPLE has Cy5 in the name, -n is the VALUE.
FLAG	GenePix flag; all spots with flag < 0 (defective spot or data) removed

Data table
ID_REF	CH1_MEAN	CH1_BKD_MEAN	CH2_MEAN	CH2_BKD_MEAN	VALUE	FLAG
0	1454	118	1516	121	0.147258	0
1	972	139	932	140	0.012097	0
2	679	141	682	140	0.095599	0
3	1001	159	1151	148	0.337342	0
4	721	150	719	143	0.097491	0
5	1509	172	1506	162	0.092446	0
6	1266	201	1181	185	-0.011723	0
7	1792	187	1880	178	0.169571	0
8	1889	281	1823	261	0.043040	0
9	1448	376	1423	330	0.112901	0
10	1931	555	1840	482	0.065916	0
11	11906	639	10411	568	-0.110021	0
12	11730	700	13826	653	0.341064	0
13	3719	630	3722	575	0.111750	0
14	1342	573	1412	496		-50
15	6118	660	5605	557	-0.027748	0
16	7626	733	6812	611	-0.067718	0
17	6440	676	5857	555	-0.035621	0
18	2294	608	1829	493	-0.250772	0
19	8045	697	7904	570	0.082161	0

Total number of rows: 7085

Table truncated, full table size 214 Kbytes.

Supplementary data files not provided