GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM9363

Query DataSets for GSM9363

Status

Public on Sep 03, 2003

Title

7-1-dCy3

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	1361	53	1319	72	0.030720	0
1	968	53	976	72	0.082172	0
2	958	48	728	66	-0.359414	0
3	931	49	758	65	-0.248302	0
4	679	49	746	64	0.214041	0
5	1078	47	915	64	-0.177192	0
6	68	46	81	64		-50
7	1459	45	1597	63	0.217138	0
8	1590	50	1499	68	-0.006285	0
9	1190	58	1184	73	0.072606	0
10	1486	60	1537	75	0.135591	0
11	8093	63	7658	77	0.016609	0
12	7963	63	7449	78	-0.000371	0
13	3060	65	2754	80	-0.063935	0
14	1090	70	1000	85	-0.057104	0
15	4962	70	4403	85	-0.080440	0
16	5290	70	4960	85	0.000974	0
17	4943	72	4006	87	-0.214111	0
18	1911	77	2007	89	0.164230	0
19	6359	80	4669	91	-0.356196	0

Total number of rows: 7085

Table truncated, full table size 210 Kbytes.

Supplementary data files not provided