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Sample GSM9407

Query DataSets for GSM9407

Status

Public on Sep 03, 2003

Title

10-1-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	2368	49	2577	64	0.212930	0
1	1417	52	1550	66	0.217612	0
2	1489	50	675	63	-1.136441	0
3	1433	50	1081	63	-0.345042	0
4	852	51	743	64	-0.141369	0
5	1395	54	1043	67	-0.361334	0
6	727	51	541	67	-0.415114	0
7	1838	51	2088	68	0.273838	0
8	2157	53	2011	71	-0.020056	0
9	1393	53	1553	72	0.241361	0
10	1554	57	1857	75	0.348445	0
11	9486	62	11301	78	0.349069	0
12	10069	67	2895	80	-1.732060	0
13	3236	78	3279	89	0.111567	0
14	1162	77	1150	89	0.064752	0
15	4323	71	4246	84	0.066157	0
16	4984	75	4983	90	0.092312	0
17	4010	78	4348	92	0.211257	0
18	1472	79	1595	95	0.203789	0
19	3978	79	3182	97	-0.240812	0

Total number of rows: 7085

Table truncated, full table size 210 Kbytes.

Supplementary data files not provided