GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM10448

Query DataSets for GSM10448

Status

Public on Jan 01, 2005

Title

WT Cotyledon Stage Seed 1

Sample type

RNA

Source name

Genotype: Ws-0, Wild Type; Stage: Cotyledon Stage Seed; Biological Replica: 1 of 2

Organism

Arabidopsis thaliana

Extracted molecule

total RNA

Description

Growth Condition: Plants were grown in a Conviron chamber under continuous light with fluorescent lamps at 20oC and 50% - 70% relative humidity. Experiments were performed as described (Le et. al., 2003, PNAS).

Microarray Methods: Total RNA was extracted using the Hot Borate Method (ref.). Fifteen micrograms of biotinylated complementary RNA (cRNA) was prepared as described (Le et. al., 2003, PNAS). cRNA was subsequently hybridized to Affymetrix ATH1 Arabidopsis GeneChips. The scanned array images were analyzed using Affymetrix Microarray Suite 5.0 (MAS 5.0) with a global scaling intensity set at 500.
Keywords = Arabidopsis
Keywords = seed development
Lot batch = 2003282

Submission date

Sep 24, 2003

Last update date

Aug 28, 2018

Contact name

Bob Goldberg

E-mail(s)

[email protected]

Phone

310-825-3270

Organization name

University of California, Los Angeles

Department

Molecular, Cell and Developmental Biology

Street address

610 Charles E Young Drive East

City

Los Angeles

State/province

ZIP/Postal code

90095

Country

USA

Platform ID

GPL198

Series (2)

GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
GSE1051	Seed development in LEAFY COTYLEDON1 mutants

Relations

Reanalyzed by

GSE119083

Data table header descriptions
ID_REF
VALUE	This is the final calculated measurement for each probe set identifier that has been made comparable across all samples and rows
ABS_CALL	A qualitative measurement indicating if the probe set is detected (Present ; P), not detected (Absent; A), or marginally detected (Marginal; M)
DETECTION P-VALUE	A p-value indicating the significance of the Detection call

Data table
ID_REF	VALUE	ABS_CALL	DETECTION P-VALUE
AFFX-BioB-5_at	838.7	P	0.00011
AFFX-BioB-M_at	1406.8	P	0.000044
AFFX-BioB-3_at	1001.5	P	0.00007
AFFX-BioC-5_at	1880.2	P	0.00007
AFFX-BioC-3_at	1081.1	P	0.00007
AFFX-BioDn-5_at	1855.1	P	0.000044
AFFX-BioDn-3_at	7768.8	P	0.000044
AFFX-CreX-5_at	17225.4	P	0.000044
AFFX-CreX-3_at	21626.1	P	0.000044
AFFX-DapX-5_at	20.6	A	0.48511
AFFX-DapX-M_at	37.8	A	0.227636
AFFX-DapX-3_at	2.4	A	0.960339
AFFX-LysX-5_at	3.4	A	0.883887
AFFX-LysX-M_at	4.7	A	0.973889
AFFX-LysX-3_at	1.6	A	0.672921
AFFX-PheX-5_at	3.9	A	0.921998
AFFX-PheX-M_at	8	A	0.814869
AFFX-PheX-3_at	9.5	A	0.737173
AFFX-ThrX-5_at	1.9	A	0.794268
AFFX-ThrX-M_at	10.4	A	0.51489

Total number of rows: 22810

Table truncated, full table size 588 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM10448.CEL.gz	3.3 Mb	(ftp)(http)	CEL