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Sample GSM9426

Query DataSets for GSM9426

Status

Public on Sep 03, 2003

Title

13-1-aCy5

Sample type

RNA

Channel 1

Source name

segregant from BY4716 x wild wine strain RM11-1a

Organism

Saccharomyces cerevisiae

Extracted molecule

total RNA

Channel 2

Source name

reference pool of BY4716 strain

Organism

Saccharomyces cerevisiae

Extracted molecule

total RNA

Description

RNA from a haploid F1 segregant from a cross between the
lab strain BY4716 (isogenic to S288c) and haploid derivative RM11-1a from a wild isolate
strain from a California vineyard collected by R.
Mortimer. The reference sample is RNA from haploid
BY4716. 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	1106	46	917	50	0.010547	0
1	551	48	518	51	-0.172277	0
2	819	47	509	48	0.464421	0
3	826	50	532	50	0.407610	0
4	569	45	345	46	0.530008	0
5	748	58	631	74	0.029506	0
6	119	43	111	46		-50
7	1114	47	806	46	0.210076	0
8	1095	53	885	54	0.047022	0
9	731	58	564	60	0.137770	0
10	940	54	730	56	0.115145	0
11	5386	99	4428	75	0.001026	0
12	13072	138	4099	94	1.411881	0
13	2181	118	1546	88	0.221340	0
14	815	97	588	75	0.205612	0
15	2749	84	2252	73	0.011056	0
16	3430	95	2608	87	0.124278	0
17	2493	85	1933	80	0.098559	0
18	907	67	757	69	0.008568	0
19	2787	78	3011	86	-0.390089	0

Total number of rows: 7085

Table truncated, full table size 209 Kbytes.

Supplementary data files not provided