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Sample GSM9379

Query DataSets for GSM9379

Status

Public on Sep 03, 2003

Title

8-1-aCy3

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	1456	83	1674	98	0.366485	0
1	917	88	885	101	0.087031	0
2	658	104	502	111	-0.335168	0
3	921	109	999	118	0.285211	0
4	542	98	478	110	-0.103305	0
5	1069	162	921	175	-0.114378	0
6	885	89	824	102	0.026779	0
7	1305	91	1558	105	0.426815	0
8	1332	89	1213	103	0.004282	0
9	739	90	725	102	0.108563	0
10	1138	94	1171	104	0.198987	0
11	5917	123	5996	130	0.185366	0
12	5299	147	3361	145	-0.512316	0
13	1737	142	2068	137	0.443341	0
14	602	128	560	131	0.023640	0
15	1912	118	1944	125	0.187515	0
16	2453	121	2195	128	-0.006480	0
17	1770	134	1830	139	0.215253	0
18	664	136	715	139	0.293080	0
19	3489	149	2910	147	-0.106064	0

Total number of rows: 7085

Table truncated, full table size 221 Kbytes.

Supplementary data files not provided