GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM105828

Query DataSets for GSM105828

Status

Public on May 17, 2006

Title

xcaf21(2)

Sample type

RNA

Source name

seedling

Organism

Arabidopsis thaliana

Characteristics

Strain: caf21(2)
Background: dcl1-9
Time (days): 21.0

Extracted molecule

total RNA

Label

biotin

Label protocol

biotin cRNA

Description

none

Data processing

MAS5.0

Submission date

Apr 18, 2006

Last update date

Apr 19, 2006

Contact name

Matthew Wayne Vaughn

E-mail(s)

vaughn@tacc.utexas.edu

Phone

(512) 232-7124

Organization name

University of Texas at Austin

Department

Texas Advanced Computing Center

Lab

Vaughn

Street address

10100 Burnet Rd

City

Austin

State/province

ZIP/Postal code

78758

Country

USA

Platform ID

GPL71

Series (1)

GSE4684

miRNA-Targeted and siRNA-Mediated mRNA Degradation Regulated by Argonaute, Dicer and RdRP

Data table header descriptions
ID_REF
VALUE	MAS5.0
Control Value	median of a user specified list of positive control genes
Normalized Value	For samples where the bottom tenth percentile was less than the negative of the median of the positive control genes, the bottom tenth percentile was used as a background, and subtracted from all the other genes first. User specified genes were used as negative controls for a background subtraction; their median value was subtracted from the raw values for each gene. Values below 0.01 were set to 0.01.
ABS_CALL

Data table
ID_REF	VALUE	Control Value	Normalized Value	ABS_CALL
11986_at	101.9	91	1.087	P
11987_at	183	91	1.979	P
11988_at	78.8	91	0.834	P
11989_at	21.5	91	0.204	P
11990_at	31.8	91	0.317	P
11991_g_at	66.6	91	0.699	P
11992_at	109	91	1.165	P
11993_at	6.6	91	0.0401	A
11994_at	249.1	91	2.705	P
11995_at	32.8	91	0.328	P
11996_at	160.4	91	1.73	P
11997_at	36.7	91	0.371	P
11998_at	65.3	91	0.685	P
11999_at	0.9	91	0.01	A
12000_at	37.7	91	0.382	P
12001_at	114.1	91	1.221	P
12002_at	86.5	91	0.918	P
12003_at	12.9	91	0.109	A
12004_at	103.1	91	1.101	P
12005_at	20.6	91	0.194	P

Total number of rows: 8247

Table truncated, full table size 202 Kbytes.

Supplementary data files not provided