GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM1549

Query DataSets for GSM1549

Status

Public on May 01, 2002

Title

2.7.d-BY

Sample type

RNA

Channel 1

Source name

segregant from BY4716 x wild wine strain

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 a wild isolate
strain from a California vineyard collected by R.
Mortimer. The reference sample is RNA from haploid
BY4716. See Brem et al., Science 296(5568):752-755.
Lot batch =

Submission date

Apr 26, 2002

Last update date

May 28, 2005

Contact name

Rachel Brem

E-mail(s)

rbrem@fhcrc.org

Phone

206-667-5659

Fax

206-667-5978

URL

http://www.fhcrc.org/labs/kruglyak/index.html

Organization name

Fred Hutchinson Cancer Research Institute

Department

Human Biology

Lab

Kruglyak

Street address

1100 Fairview Ave. N. D4-100

City

Seattle

State/province

ZIP/Postal code

98109

Country

USA

Platform ID

GPL118

Series (1)

GSE37

BYxwild_40

Data table header descriptions
ID_REF	Spot number from platform GPL118
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	1157	235	1295	59	0.131026	0
1	923	227	781	54	-0.228946	0
2	19179	242	647	54	-5.288846	0
3	2011	278	633	83	-1.947582	0
4	500	251	423	62	0.244039	0
5	627	225	629	51	0.232060	0
6	550	222	507	47	0.196124	0
7	774	226	732	48	0.028007	0
8	1111	234	655	56	-0.841835	0
9	504	239	478	63	0.355305	0
10	505	230	689	60	0.901815	0
11	2633	227	3298	59	0.137098	0
12	595	223	1647	55	1.805652	0
13	814	228	931	57	0.284919	0
14	501	241	504	68	0.454003	0
15	1202	228	1447	54	0.224388	0
16	1445	223	1588	54	0.036240	0
17	1256	222	1579	54	0.268759	0
18	745	231	657	55	-0.063819	0
19	1651	234	1868	58	0.061336	0

Total number of rows: 7085

Table truncated, full table size 215 Kbytes.

Supplementary data files not provided