Result

Search results for the GEO ID: GSE25610

(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

GSM629401

GPL1261

2dpp testis culture control-1

2dpp 129 mouse

strain: 129 Stage: 2 dpp treatment: control

Gene expression data from 2ddp testis cultured for 24h in presence of vehicle.

Sample_geo_accession	GSM629401
Sample_status	Public on Nov 25 2010
Sample_submission_date	Nov 24 2010
Sample_last_update_date	Nov 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Tissue was cultured in an agar block placed into a well of a 24-well plate containing 300 µl Dulbecco Modified Eagle Medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and cultured at 37°C with 5% CO2. DMSO was used as the vehicle and WIN18,446 was used at a final concentration of 1 µM.
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	Approximately 100 ng total RNA from each sample was used to generate cDNA using the Ovation RNA Amplification System V2 (NuGEN, San Carlos, CA) according to the manufacturer's instructions. 3.75ug of the cDNA was then fragmented and labelled using the Encore Biotin Module (NuGEN, San Carlos, CA) according to the manufacturer's instructions.
Sample_hyb_protocol	Fragmented, biotin labeled cDNA was hybridized for 16 hr at 45C on GeneChip 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 7G.
Sample_data_processing	The data were analyzed with GeneChip Robust Multi-array Average(GC-RMA) using Genespring 11.0 default analysis settings as normalization method.
Sample_platform_id	GPL1261
Sample_contact_name	Ryan,,Evanoff
Sample_contact_email	revanoff@wsu.edu
Sample_contact_phone	509-335-2240
Sample_contact_laboratory	Griswold Lab
Sample_contact_department	School of Molecular Biosciences
Sample_contact_institute	Washington State University
Sample_contact_address	PO Box 647520
Sample_contact_city	Pullman
Sample_contact_state	WA
Sample_contact_zip/postal_code	99164-7520
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM629nnn/GSM629401/suppl/GSM629401.CEL.gz
Sample_series_id	GSE25610
Sample_data_row_count	45101

GSM629402

GPL1261

2dpp testis culture control-2

2dpp 129 mouse

strain: 129 Stage: 2 dpp treatment: control

Gene expression data from 2ddp testis cultured for 24h in presence of vehicle.

Sample_geo_accession	GSM629402
Sample_status	Public on Nov 25 2010
Sample_submission_date	Nov 24 2010
Sample_last_update_date	Nov 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Tissue was cultured in an agar block placed into a well of a 24-well plate containing 300 µl Dulbecco Modified Eagle Medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and cultured at 37°C with 5% CO2. DMSO was used as the vehicle and WIN18,446 was used at a final concentration of 1 µM.
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	Approximately 100 ng total RNA from each sample was used to generate cDNA using the Ovation RNA Amplification System V2 (NuGEN, San Carlos, CA) according to the manufacturer's instructions. 3.75ug of the cDNA was then fragmented and labelled using the Encore Biotin Module (NuGEN, San Carlos, CA) according to the manufacturer's instructions.
Sample_hyb_protocol	Fragmented, biotin labeled cDNA was hybridized for 16 hr at 45C on GeneChip 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 7G.
Sample_data_processing	The data were analyzed with GeneChip Robust Multi-array Average(GC-RMA) using Genespring 11.0 default analysis settings as normalization method.
Sample_platform_id	GPL1261
Sample_contact_name	Ryan,,Evanoff
Sample_contact_email	revanoff@wsu.edu
Sample_contact_phone	509-335-2240
Sample_contact_laboratory	Griswold Lab
Sample_contact_department	School of Molecular Biosciences
Sample_contact_institute	Washington State University
Sample_contact_address	PO Box 647520
Sample_contact_city	Pullman
Sample_contact_state	WA
Sample_contact_zip/postal_code	99164-7520
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM629nnn/GSM629402/suppl/GSM629402.CEL.gz
Sample_series_id	GSE25610
Sample_data_row_count	45101

GSM629403

GPL1261

2dpp testis culture win18446-1

2dpp 129 mouse

strain: 129 Stage: 2 dpp treatment: WIN 18,446

Gene expression data from 2ddp testis cultured for 24h in presence of WIN 18,446.

Sample_geo_accession	GSM629403
Sample_status	Public on Nov 25 2010
Sample_submission_date	Nov 24 2010
Sample_last_update_date	Nov 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Tissue was cultured in an agar block placed into a well of a 24-well plate containing 300 µl Dulbecco Modified Eagle Medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and cultured at 37°C with 5% CO2. DMSO was used as the vehicle and WIN18,446 was used at a final concentration of 1 µM.
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	Approximately 100 ng total RNA from each sample was used to generate cDNA using the Ovation RNA Amplification System V2 (NuGEN, San Carlos, CA) according to the manufacturer's instructions. 3.75ug of the cDNA was then fragmented and labelled using the Encore Biotin Module (NuGEN, San Carlos, CA) according to the manufacturer's instructions.
Sample_hyb_protocol	Fragmented, biotin labeled cDNA was hybridized for 16 hr at 45C on GeneChip 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 7G.
Sample_data_processing	The data were analyzed with GeneChip Robust Multi-array Average(GC-RMA) using Genespring 11.0 default analysis settings as normalization method.
Sample_platform_id	GPL1261
Sample_contact_name	Ryan,,Evanoff
Sample_contact_email	revanoff@wsu.edu
Sample_contact_phone	509-335-2240
Sample_contact_laboratory	Griswold Lab
Sample_contact_department	School of Molecular Biosciences
Sample_contact_institute	Washington State University
Sample_contact_address	PO Box 647520
Sample_contact_city	Pullman
Sample_contact_state	WA
Sample_contact_zip/postal_code	99164-7520
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM629nnn/GSM629403/suppl/GSM629403.CEL.gz
Sample_series_id	GSE25610
Sample_data_row_count	45101

GSM629404

GPL1261

2dpp testis culture win18446-2

2dpp 129 mouse

strain: 129 Stage: 2 dpp treatment: WIN 18,446

Gene expression data from 2ddp testis cultured for 24h in presence of WIN 18,446.

Sample_geo_accession	GSM629404
Sample_status	Public on Nov 25 2010
Sample_submission_date	Nov 24 2010
Sample_last_update_date	Nov 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Tissue was cultured in an agar block placed into a well of a 24-well plate containing 300 µl Dulbecco Modified Eagle Medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and cultured at 37°C with 5% CO2. DMSO was used as the vehicle and WIN18,446 was used at a final concentration of 1 µM.
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	Approximately 100 ng total RNA from each sample was used to generate cDNA using the Ovation RNA Amplification System V2 (NuGEN, San Carlos, CA) according to the manufacturer's instructions. 3.75ug of the cDNA was then fragmented and labelled using the Encore Biotin Module (NuGEN, San Carlos, CA) according to the manufacturer's instructions.
Sample_hyb_protocol	Fragmented, biotin labeled cDNA was hybridized for 16 hr at 45C on GeneChip 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 7G.
Sample_data_processing	The data were analyzed with GeneChip Robust Multi-array Average(GC-RMA) using Genespring 11.0 default analysis settings as normalization method.
Sample_platform_id	GPL1261
Sample_contact_name	Ryan,,Evanoff
Sample_contact_email	revanoff@wsu.edu
Sample_contact_phone	509-335-2240
Sample_contact_laboratory	Griswold Lab
Sample_contact_department	School of Molecular Biosciences
Sample_contact_institute	Washington State University
Sample_contact_address	PO Box 647520
Sample_contact_city	Pullman
Sample_contact_state	WA
Sample_contact_zip/postal_code	99164-7520
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM629nnn/GSM629404/suppl/GSM629404.CEL.gz
Sample_series_id	GSE25610
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