Result

Search results for the GEO ID: GSE22877

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM565200

GPL1261

Mouse CD4 T cells

Mouse control T cells

strain: C57 BL/6 background gender: male age: 6-week-old tissue: T cells

Strain: C57 BL/6 background; Gender: male; Age: 6-week-old; Tissue: T cells

Sample_geo_accession	GSM565200
Sample_status	Public on Jul 12 2012
Sample_submission_date	Jul 12 2010
Sample_last_update_date	Jul 12 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Sugita, Tokyo Medical and Dental University
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA of these T cells (RPE-exposed T cells and control T cells) was isolated with Trizol reagent (Invitrogen-Life Technologies). RNA was further purified using an RNeasy Mini Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	5 micrograms of total RNA was reverse transcribed using the SuperScript II system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix. The oligonucleotide used for priming was 5'-ggccagtgaattgtaatacgactcactatagggaggcgg-(t)24-3' (Affymetrix). Double-stranded cDNA was cleaned up by using Phase Lock Gels (Eppendorf)-Phenol/Chloroform Extraction (Ambion). In vitro transcription was performed on all of cDNA using the GeneChip IVT Labeling Kit (Affymetrix). The cRNA was cleaned up by using RNeasy Mini spin column (QIAGEN). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
Sample_hyb_protocol	10 micrograms of fragmented cRNA were hybridized (45 degree Celsius, 16 hours). Hybridization was controled by adding cRNA cocktail (BioC, BioD, Cre) mixed as described in previous versions of the Expression Analysis Technical Manual. Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v5.
Sample_scan_protocol	Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
Sample_data_processing	Chip analysis was performed using the Affymetrix GeneChip Operating Software v1.3.
Sample_platform_id	GPL1261
Sample_contact_name	Sunao,,Sugita
Sample_contact_email	sunaoph@tmd.ac.jp
Sample_contact_phone	81-3-5803-5302
Sample_contact_fax	81-3-3818-7188
Sample_contact_department	Ophthalmology
Sample_contact_institute	Tokyo Medical and Dental Univ.
Sample_contact_address	Yushima 1-5-45, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	Tokyo 113-8519
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM565nnn/GSM565200/suppl/GSM565200.CEL.gz
Sample_series_id	GSE22877
Sample_data_row_count	45101

GSM565201

GPL1261

Mouse T cells exposed to retinal pigment epithelium (RPE)

strain: C57 BL/6 background gender: male age: 6-week-old tissue: primary cultured retinal pigment epithelium (RPE)

Strain: C57 BL/6 background; Gender: male; Age: 6-week-old; Tissue: primary cultured retinal pigment epithelium (RPE)

Sample_geo_accession	GSM565201
Sample_status	Public on Jul 12 2012
Sample_submission_date	Jul 12 2010
Sample_last_update_date	Jul 12 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Sugita, Tokyo Medical and Dental University
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA of these T cells (RPE-exposed T cells and control T cells) was isolated with Trizol reagent (Invitrogen-Life Technologies). RNA was further purified using an RNeasy Mini Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	5 micrograms of total RNA was reverse transcribed using the SuperScript II system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix. The oligonucleotide used for priming was 5'-ggccagtgaattgtaatacgactcactatagggaggcgg-(t)24-3' (Affymetrix). Double-stranded cDNA was cleaned up by using Phase Lock Gels (Eppendorf)-Phenol/Chloroform Extraction (Ambion). In vitro transcription was performed on all of cDNA using the GeneChip IVT Labeling Kit (Affymetrix). The cRNA was cleaned up by using RNeasy Mini spin column (QIAGEN). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
Sample_hyb_protocol	10 micrograms of fragmented cRNA were hybridized (45 degree Celsius, 16 hours). Hybridization was controled by adding cRNA cocktail (BioC, BioD, Cre) mixed as described in previous versions of the Expression Analysis Technical Manual. Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v5.
Sample_scan_protocol	Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
Sample_data_processing	Chip analysis was performed using the Affymetrix GeneChip Operating Software v1.3.
Sample_platform_id	GPL1261
Sample_contact_name	Sunao,,Sugita
Sample_contact_email	sunaoph@tmd.ac.jp
Sample_contact_phone	81-3-5803-5302
Sample_contact_fax	81-3-3818-7188
Sample_contact_department	Ophthalmology
Sample_contact_institute	Tokyo Medical and Dental Univ.
Sample_contact_address	Yushima 1-5-45, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	Tokyo 113-8519
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM565nnn/GSM565201/suppl/GSM565201.CEL.gz
Sample_series_id	GSE22877
Sample_data_row_count	45101

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