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Sample GSM9416

Query DataSets for GSM9416

Status

Public on Sep 03, 2003

Title

11-1-aCy5

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	726	49	804	69	-0.248479	0
1	463	46	526	65	-0.274610	0
2	456	42	431	61	0.032215	0
3	413	42	512	59	-0.417982	0
4	273	43	348	59	-0.459326	0
5	445	46	528	62	-0.353832	0
6	99	42	140	60	-0.618928	0
7	804	44	755	62	0.003254	0
8	738	46	802	64	-0.222739	0
9	466	49	534	67	-0.293266	0
10	585	52	689	71	-0.343362	0
11	4186	60	3716	79	0.052105	0
12	1792	60	3256	79	-1.005117	0
13	1260	52	1245	70	-0.089931	0
14	409	50	439	69	-0.173432	0
15	1410	53	1454	71	-0.157271	0
16	1825	53	1890	73	-0.166070	0
17	1606	56	1514	74	-0.023691	0
18	607	55	536	72	0.120653	0
19	1188	52	2740	70	-1.362767	0

Total number of rows: 7085

Table truncated, full table size 207 Kbytes.

Supplementary data files not provided