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Sample GSM9352

Query DataSets for GSM9352

Status

Public on Sep 03, 2003

Title

6-2-bCy5

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	536	50	697	77	-0.327830	0
1	392	56	514	83	-0.335744	0
2	437	60	450	87	0.078077	0
3	392	65	512	89	-0.347885	0
4	323	72	384	96	-0.174899	0
5	577	79	697	104	-0.228404	0
6	114	81	145	103		-50
7	751	81	826	103	-0.086352	0
8	749	81	942	104	-0.303620	0
9	562	80	763	105	-0.425572	0
10	638	85	822	109	-0.343140	0
11	3971	96	4812	117	-0.253447	0
12	5292	97	4255	115	0.350975	0
13	1560	101	1943	119	-0.298644	0
14	608	100	670	118	-0.096358	0
15	2034	91	2685	109	-0.383365	0
16	2707	89	3132	107	-0.184988	0
17	2241	75	2762	94	-0.277243	0
18	850	67	987	88	-0.175827	0
19	1697	66	4835	89	-1.517473	0

Total number of rows: 7085

Table truncated, full table size 209 Kbytes.

Supplementary data files not provided