Result

Search results for the GEO ID: GSE20923

(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

GSM523459

GPL570

HT-29_siLuc_72h

HT-29 cells, siLuc

cell line: HT-29 cell type: colorectal adenocarcinoma sirna: siLuc

Microarray hybridization and image scanning was performed by the Genome Research Centre, The University of Hong Kong.

Sample_geo_accession	GSM523459
Sample_status	Public on Mar 01 2011
Sample_submission_date	Mar 17 2010
Sample_last_update_date	Mar 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HT-29 cells were transfected with siRNAs targeting firefly luciferase and human IFITM1 mRNAs for 72 h. A siLuc-transfected sample was used as the baseline control.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNeasy Mini kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Total RNA was first amplified and labeled with MessageAmp II-Biotin Enhanced Single Round aRNA Amplification Kit (Ambion Inc., TX). Double strand cDNA was then reverse transcribed from 1 μg of amplified total RNA using Oligo(dT) primer bearing a T7 promoter. The double strand cDNA was used as a template for in vitro transcription to generate biotin-labeled cRNA.
Sample_hyb_protocol	After fragmentation, 15 μg of cRNA was hybridized to the GeneChip Human Genome U133 Plus 2.0 Array using Hybridization Oven 640 (Affymetrix, Santa Clara, CA) for 16 h. The microarray chips were then washed and stained using GeneChip Fluidics Station 400 (Affymetrix) according to the manufacturer’s instructions.
Sample_scan_protocol	The images were scanned by GeneChip Scanner 3000 (Affymetrix).
Sample_data_processing	Primary image analysis was performed with MicroArray Suite v5.0 (MAS5, Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	William,K. C.,Cheung
Sample_contact_email	ckchun@hkusua.hku.hk
Sample_contact_phone	(852) 22990759
Sample_contact_fax	(852) 28171006
Sample_contact_laboratory	Open Laboratory of Chemistry Biology
Sample_contact_department	Chemistry
Sample_contact_institute	The University of Hong Kong
Sample_contact_address	Pokfulam Road
Sample_contact_city	Hong Kong
Sample_contact_zip/postal_code	nil
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM523nnn/GSM523459/suppl/GSM523459.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM523nnn/GSM523459/suppl/GSM523459.CHP.gz
Sample_series_id	GSE20923
Sample_data_row_count	54675

GSM523460

GPL570

HT-29_siIFITM1_72h

HT-29 cells, siIFITM1

cell line: HT-29 cell type: colorectal adenocarcinoma sirna: siIFITM1

Microarray hybridization and image scanning was performed by the Genome Research Centre, The University of Hong Kong.

Sample_geo_accession	GSM523460
Sample_status	Public on Mar 01 2011
Sample_submission_date	Mar 17 2010
Sample_last_update_date	Mar 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HT-29 cells were transfected with siRNAs targeting firefly luciferase and human IFITM1 mRNAs for 72 h. A siLuc-transfected sample was used as the baseline control.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNeasy Mini kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Total RNA was first amplified and labeled with MessageAmp II-Biotin Enhanced Single Round aRNA Amplification Kit (Ambion Inc., TX). Double strand cDNA was then reverse transcribed from 1 μg of amplified total RNA using Oligo(dT) primer bearing a T7 promoter. The double strand cDNA was used as a template for in vitro transcription to generate biotin-labeled cRNA.
Sample_hyb_protocol	After fragmentation, 15 μg of cRNA was hybridized to the GeneChip Human Genome U133 Plus 2.0 Array using Hybridization Oven 640 (Affymetrix, Santa Clara, CA) for 16 h. The microarray chips were then washed and stained using GeneChip Fluidics Station 400 (Affymetrix) according to the manufacturer’s instructions.
Sample_scan_protocol	The images were scanned by GeneChip Scanner 3000 (Affymetrix).
Sample_data_processing	Primary image analysis was performed with MicroArray Suite v5.0 (MAS5, Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	William,K. C.,Cheung
Sample_contact_email	ckchun@hkusua.hku.hk
Sample_contact_phone	(852) 22990759
Sample_contact_fax	(852) 28171006
Sample_contact_laboratory	Open Laboratory of Chemistry Biology
Sample_contact_department	Chemistry
Sample_contact_institute	The University of Hong Kong
Sample_contact_address	Pokfulam Road
Sample_contact_city	Hong Kong
Sample_contact_zip/postal_code	nil
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM523nnn/GSM523460/suppl/GSM523460.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM523nnn/GSM523460/suppl/GSM523460.CHP.gz
Sample_series_id	GSE20923
Sample_data_row_count	54675

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