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Sample GSM150285

Query DataSets for GSM150285

Status

Public on Dec 15, 2006

Title

earlybird wildtype hippocampus hew2A

Sample type

RNA

Source name

hippocampus

Organism

Mus musculus

Characteristics

earlybird wildtype hippocampus

Extracted molecule

total RNA

Extraction protocol

Approximately 50 mg of tissue was homogenized in 1 ml TriZol reagent and total RNA was extracted according to manufacture's protocol. Total RNA was cleaned up using an RNeasy kit (Qiagen).

Label

biotin

Label protocol

Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets.

Hybridization protocol

standard Affymetrix procedures

Scan protocol

standard Affymetrix procedures

Description

hippocampus from wild type littermate of earlybird mutant mouse

Data processing

Affymetrix Microarray Suite version 5.0

Submission date

Dec 14, 2006

Last update date

Dec 14, 2006

Contact name

Maja Bucan

E-mail(s)

[email protected]

Organization name

UPENN

Street address

415 Curie Blvd

City

Philadelphia

State/province

ZIP/Postal code

19104

Country

USA

Platform ID

GPL339

Series (1)

GSE6527

Earlybird mutation and knockout of Rab3a on gene expression in the cortex and hippocampus

Data table header descriptions
ID_REF
VALUE	MAS5-calculated Signal intensity
ABS_CALL	the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE	'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF	VALUE	ABS_CALL	DETECTION P-VALUE
AFFX-BioB-5_at	148.1	P	0.006871
AFFX-BioB-M_at	222.4	P	0.000195
AFFX-BioB-3_at	103.4	P	0.002275
AFFX-BioC-5_at	378.9	P	0.00034
AFFX-BioC-3_at	212.3	P	0.000081
AFFX-BioDn-5_at	302.7	P	0.000081
AFFX-BioDn-3_at	1802.7	P	0.000195
AFFX-CreX-5_at	3499.1	P	0.000044
AFFX-CreX-3_at	5280.9	P	0.000044
AFFX-DapX-5_at	30.2	A	0.139482
AFFX-DapX-M_at	19.5	A	0.227636
AFFX-DapX-3_at	3.1	A	0.969024
AFFX-LysX-5_at	10.3	A	0.631562
AFFX-LysX-M_at	17.6	A	0.470241
AFFX-LysX-3_at	1.5	A	0.814869
AFFX-PheX-5_at	1.5	A	0.990663
AFFX-PheX-M_at	2.2	A	0.897835
AFFX-PheX-3_at	3.8	A	0.824672
AFFX-ThrX-5_at	3.7	A	0.957038
AFFX-ThrX-M_at	3.5	A	0.794268

Total number of rows: 22690

Table truncated, full table size 610 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM150285.CEL.gz	3.2 Mb	(ftp)(http)	CEL