GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM9429

Query DataSets for GSM9429

Status

Public on Sep 03, 2003

Title

13-3-bCy3

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	2054	48	2107	57	0.183663	0
1	1181	50	1329	60	0.318454	0
2	981	48	706	58	-0.373522	0
3	1320	50	945	60	-0.368718	0
4	788	49	735	60	0.021674	0
5	1392	50	1181	61	-0.108525	0
6	158	46	153	57	-0.070032	0
7	2212	48	2270	59	0.183359	0
8	2267	55	2625	66	0.362590	0
9	1267	59	1213	70	0.072566	0
10	1688	56	2065	64	0.446441	0
11	10456	79	12433	87	0.403015	0
12	12023	130	5228	116	-1.065792	0
13	3921	116	3776	97	0.103778	0
14	1515	81	1543	82	0.179272	0
15	6026	79	5450	83	0.004315	0
16	7475	95	8347	98	0.312959	0
17	5401	96	5653	104	0.217236	0
18	2270	96	2853	101	0.492489	0
19	6567	107	6751	107	0.192879	0

Total number of rows: 7085

Table truncated, full table size 215 Kbytes.

Supplementary data files not provided