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Sample GSM9358

Query DataSets for GSM9358

Status

Public on Sep 03, 2003

Title

6-5-dCy5

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	1427	54	1217	65	0.001714	0
1	807	54	740	65	-0.093714	0
2	1167	51	639	62	0.700217	0
3	1219	57	806	65	0.397588	0
4	863	59	543	69	0.510832	0
5	1191	55	921	65	0.156803	0
6	2845	50	1902	61	0.350882	0
7	1665	52	1218	62	0.229128	0
8	1249	50	1112	60	-0.062780	0
9	882	50	817	60	-0.115186	0
10	1096	53	1079	62	-0.215057	0
11	7423	79	6605	74	-0.082215	0
12	21448	79	5542	71	1.714166	0
13	2738	53	2271	57	0.026790	0
14	1076	46	773	54	0.267104	0
15	3471	61	3319	60	-0.186134	0
16	4082	46	3895	56	-0.179281	0
17	3264	46	3121	55	-0.181670	0
18	1053	45	955	56	-0.086374	0
19	2514	46	4547	57	-1.114850	0

Total number of rows: 7085

Table truncated, full table size 209 Kbytes.

Supplementary data files not provided