Result

Search results for the GEO ID: GSE44308

(Click on the check boxes provided under "Select for analysis", to initiate grouping)

(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down)

GSM ID

GPL ID

Select for analysis

Title

Source name

Description

Characteristics

GSM1082924

GPL1261

Sox11(+/+) cortex at E17.5

E17.5 cortex from a wild type embryo

age: E17.5 genotype: wild type tissue: embryonic cortex genetic background: C57BL/6 and 129

gene expression data from E17.5 cortex of a wild type mouse embryo

Sample_geo_accession	GSM1082924
Sample_status	Public on Jul 11 2013
Sample_submission_date	Feb 13 2013
Sample_last_update_date	Jul 11 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	The brain was dissected out from each embryo under a microscope and the cerebral cortex from each brain was isolated and transferred into an Eppendorf tube containing 1 ml of Trizol. The tissue was frozen in liquid nitrogen. The tail clip from each embryo was used for genotyping by PCR.
Sample_growth_protocol_ch1	A timed pregnant female Sox11(+/-) mouse, mated with a Sox11(+/-) male mouse, was used to collect embryos at E17.5.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (GeneChip Expression Analysis Technical Manual, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45 degree Celsius on Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with the Affymetrix Expression Console using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Sample_platform_id	GPL1261
Sample_contact_name	Lei,,Lei
Sample_contact_email	LLei@une.edu
Sample_contact_department	Biology
Sample_contact_institute	University of New England
Sample_contact_address	11 Hills Beach Road
Sample_contact_city	Biddeford
Sample_contact_state	ME
Sample_contact_zip/postal_code	04005
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1082nnn/GSM1082924/suppl/GSM1082924_Sox11-wt.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1082nnn/GSM1082924/suppl/GSM1082924_Sox11-wt.mas5.CHP.gz
Sample_series_id	GSE44308
Sample_data_row_count	45101

GSM1082925

GPL1261

Sox11(-/-) cortex at E17.5

E17.5 cortex from a Sox11(-/-) embryo

age: E17.5 genotype: Sox -/- tissue: embryonic cortex genetic background: C57BL/6 and 129

gene expression data from E17.5 cortex of a Sox11(-/-) mouse embryo

Sample_geo_accession	GSM1082925
Sample_status	Public on Jul 11 2013
Sample_submission_date	Feb 13 2013
Sample_last_update_date	Jul 11 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	The brain was dissected out from each embryo under a microscope and the cerebral cortex from each brain was isolated and transferred into an Eppendorf tube containing 1 ml of Trizol. The tissue was frozen in liquid nitrogen. The tail clip from each embryo was used for genotyping by PCR.
Sample_growth_protocol_ch1	A timed pregnant female Sox11(+/-) mouse, mated with a Sox11(+/-) male mouse, was used to collect embryos at E17.5.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (GeneChip Expression Analysis Technical Manual, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45 degree Celsius on Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with the Affymetrix Expression Console using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Sample_platform_id	GPL1261
Sample_contact_name	Lei,,Lei
Sample_contact_email	LLei@une.edu
Sample_contact_department	Biology
Sample_contact_institute	University of New England
Sample_contact_address	11 Hills Beach Road
Sample_contact_city	Biddeford
Sample_contact_state	ME
Sample_contact_zip/postal_code	04005
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1082nnn/GSM1082925/suppl/GSM1082925_Sox11-ko.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1082nnn/GSM1082925/suppl/GSM1082925_Sox11-ko.mas5.CHP.gz
Sample_series_id	GSE44308
Sample_data_row_count	45101

Make groups for comparisons

(2 groups will be compared at a time)

Select GSMs and click on "Add groups"

Enter the group name here:

Select expression type

Transcripts profile based on;

A. Differential status (Up/Down regulation)

B. Absolute calls (Transcribed/Not-detected)

Filter results by number of probes