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Sample GSM9399

Query DataSets for GSM9399

Status

Public on Sep 03, 2003

Title

9-4-dCy3

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	794	46	927	59	0.308139	0
1	469	47	482	60	0.093482	0
2	436	50	296	62	-0.628610	0
3	510	57	527	68	0.112466	0
4	306	69	536	75	1.053362	0
5	685	77	644	79	-0.012338	0
6	463	65	326	72		-50
7	713	63	893	71	0.432181	0
8	825	69	737	77	-0.102438	0
9	460	74	889	80	1.161021	0
10	573	73	698	80	0.399161	0
11	3891	79	3735	85	0.030831	0
12	3244	95	16241	117	2.449726	0
13	1236	95	1673	116	0.541953	0
14	506	83	507	91	0.069408	0
15	1890	88	1714	94	-0.060123	0
16	2119	102	2284	104	0.205600	0
17	1874	98	1799	103	0.026987	0
18	695	99	677	103	0.039221	0
19	2596	101	2875	102	0.245890	0

Total number of rows: 7085

Table truncated, full table size 211 Kbytes.

Supplementary data files not provided