GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM9329

Query DataSets for GSM9329

Status

Public on Sep 03, 2003

Title

3-4-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	1547	77	1670	112	0.079133	0
1	961	94	1171	131	0.257734	0
2	717	102	872	138	0.250448	0
3	1021	128	1136	160	0.123475	0
4	666	127	737	161	0.091038	0
5	1214	116	1243	156	-0.019272	0
6	242	90	269	134		-50
7	1520	77	1894	121	0.292376	0
8	1624	87	2067	128	0.330450	0
9	1034	101	1144	139	0.102501	0
10	1348	95	1681	134	0.299341	0
11	8101	129	10093	170	0.311089	0
12	7309	189	3723	210	-1.023919	0
13	3075	193	3089	192	0.002744	0
14	1091	137	1162	149	0.081827	0
15	4102	109	4446	136	0.105469	0
16	4259	119	4692	151	0.128634	0
17	3611	118	4028	153	0.144984	0
18	1211	99	1446	133	0.234964	0
19	5264	99	4637	128	-0.200707	0

Total number of rows: 7085

Table truncated, full table size 214 Kbytes.

Supplementary data files not provided