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Sample GSM9475

Query DataSets for GSM9475

Status

Public on Sep 03, 2003

Title

18-4-cCy3

Sample type

RNA

Channel 1

Source name

reference pool of BY4716 strain

Organism

Saccharomyces cerevisiae

Extracted molecule

total RNA

Channel 2

Source name

segregant from BY4716 x wild wine strain RM11-1a

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	978	45	932	55	-0.038992	0
1	635	47	613	57	-0.030423	0
2	614	46	375	56	-0.782026	0
3	665	53	674	65	0.043219	0
4	480	51	416	64	-0.235094	0
5	783	48	710	59	-0.124779	0
6	527	46	561	58	0.114830	0
7	1036	53	998	64	-0.023461	0
8	1032	54	1068	65	0.086723	0
9	806	55	631	68	-0.365370	0
10	1041	91	943	101	-0.123799	0
11	6077	72	5142	80	-0.196149	0
12	5935	74	6702	84	0.225557	0
13	2074	56	2191	67	0.124166	0
14	743	54	669	66	-0.142038	0
15	2702	54	2856	66	0.125670	0
16	3378	58	3491	71	0.093121	0
17	2531	59	2568	70	0.065403	0
18	1008	58	1086	70	0.147209	0
19	4493	59	2579	68	-0.770039	0

Total number of rows: 7085

Table truncated, full table size 212 Kbytes.

Supplementary data files not provided