Result

Search results for the GEO ID: GSE10805

(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

GSM272869

GPL1261

whole lung: TAZ-deficient mice and their littermates, wildtype

whole lung, wild type

E15.5 whole lungs wild type mice and their littermates four samples were mixed for each group

Microarray analysis was performed using Mouse Genome 430 2.0 Array (Affymetrix # 900496) representing approximately 10,000 full-length genes. Sequences and GenBank accession numbers of all probe sets are available at the Affymetrix home page http://www.affymetrix.com/index.affx.

Sample_geo_accession	GSM272869
Sample_status	Public on Aug 01 2009
Sample_submission_date	Mar 13 2008
Sample_last_update_date	May 28 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from frozen tissue using ISOGENETM (Nippon Gene, Tokyo, Japan), according to the manufacturer's protocol.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	5 µg 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’ (Invitrogen). Double-stranded cDNA was cleaned by phenol:chloroform extraction and the aqueous phase removed by centrifugation through Phase-lock Gel (Eppendorf). In vitro transcription was performed on 1 µg of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (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 µg of fragmented cRNA were hybridised (45°C, 16 hours). Hybridization was controled by use of the GeneChip® Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 400 (Affymetrix) using the protocol EukGE-WS2v4.
Sample_scan_protocol	Scanning was performed in an Affymetrix GeneChip scanner 3000 7G. Chip analysis was performed using the Affymetrix Microarray Suite v5.0.
Sample_data_processing	GCOS/MAS5 software, Scanned Data were normalized to 100 as average.
Sample_platform_id	GPL1261
Sample_contact_name	Akihisa,,Mitani
Sample_contact_email	mitania-tky@umin.ac.jp
Sample_contact_phone	81-3-5841-3498
Sample_contact_fax	81-3-5684-4958
Sample_contact_laboratory	Department of physiolosical Chemistry and Metabolism
Sample_contact_department	Graduate School of Medicine
Sample_contact_institute	University of Tokyo
Sample_contact_address	7-3-1 Hongo, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	1130033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM272nnn/GSM272869/suppl/GSM272869.CEL.gz
Sample_series_id	GSE10805
Sample_data_row_count	45101

GSM272871

GPL1261

whole lung: TAZ-deficient mice and their littermates, TAZ-deficient

whole lung, TAZ-deficient

E15.5 whole lung TAZ -deficient mice and their littermates four samples were mixed for each group

Sample_geo_accession	GSM272871
Sample_status	Public on Aug 01 2009
Sample_submission_date	Mar 13 2008
Sample_last_update_date	May 28 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from frozen tissue using ISOGENETM (Nippon Gene, Tokyo, Japan), according to the manufacturer's protocol.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	5 µg 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’ (Invitrogen). Double-stranded cDNA was cleaned by phenol:chloroform extraction and the aqueous phase removed by centrifugation through Phase-lock Gel (Eppendorf). In vitro transcription was performed on 1 µg of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (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 µg of fragmented cRNA were hybridised (45°C, 16 hours). Hybridization was controled by use of the GeneChip® Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 400 (Affymetrix) using the protocol EukGE-WS2v4.
Sample_scan_protocol	Scanning was performed in an Affymetrix GeneChip scanner 3000 7G. Chip analysis was performed using the Affymetrix Microarray Suite v5.0.
Sample_data_processing	GCOS/MAS5 software, Scanned Data were normalized to 100 as average.
Sample_platform_id	GPL1261
Sample_contact_name	Akihisa,,Mitani
Sample_contact_email	mitania-tky@umin.ac.jp
Sample_contact_phone	81-3-5841-3498
Sample_contact_fax	81-3-5684-4958
Sample_contact_laboratory	Department of physiolosical Chemistry and Metabolism
Sample_contact_department	Graduate School of Medicine
Sample_contact_institute	University of Tokyo
Sample_contact_address	7-3-1 Hongo, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	1130033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM272nnn/GSM272871/suppl/GSM272871.CEL.gz
Sample_series_id	GSE10805
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