Result

Search results for the GEO ID: GSE21306

(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

GSM532558

GPL570

HT1080-Zeo

mock-transfected HT1080 cells

cell line: HT1080 fibrosarcoma agent: mock-transfected

n/a

Sample_geo_accession	GSM532558
Sample_status	Public on Apr 14 2010
Sample_submission_date	Apr 12 2010
Sample_last_update_date	Apr 13 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Permanent cell lines expressing RECK protein were established by transfecting pZeoSV2(+)-RECK or pZeoSV2(+)-RECK/4NQ into HT1080 cells followed by 50 µg/mL Zeocin (Invitrogen) selection.
Sample_growth_protocol_ch1	HT1080 cells were cultured in DMEM (SIGMA) containing 10% FCS (SIGMA) and 50 ug/mL Zeocin (Invitrogen) under 5% CO2, 37°C condition.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	ISOGEN (Nippongene) 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 8.1 to 15 ug total RNA using GeneChip IVT Labeling Kit.
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 h at 45°C on Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
Sample_platform_id	GPL570
Sample_contact_name	Satoshi,,Takagi
Sample_contact_email	stakagi@postman.riken.jp
Sample_contact_laboratory	Antibiotics Laboratory
Sample_contact_department	ASI
Sample_contact_institute	RIKEN
Sample_contact_address	hirosawa2-1
Sample_contact_city	wako
Sample_contact_state	Saitama
Sample_contact_zip/postal_code	351-0198
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532558/suppl/GSM532558_T_Z_HG133.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532558/suppl/GSM532558_T_Z_HG133_Scal.CHP.gz
Sample_series_id	GSE21306
Sample_data_row_count	54675

GSM532559

GPL570

HT1080-RECK

RECK-overexpressing HT1080 cells

cell line: HT1080 fibrosarcoma agent: RECK-overexpressing

n/a

Sample_geo_accession	GSM532559
Sample_status	Public on Apr 14 2010
Sample_submission_date	Apr 12 2010
Sample_last_update_date	Apr 13 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Permanent cell lines expressing RECK protein were established by transfecting pZeoSV2(+)-RECK or pZeoSV2(+)-RECK/4NQ into HT1080 cells followed by 50 µg/mL Zeocin (Invitrogen) selection.
Sample_growth_protocol_ch1	HT1080 cells were cultured in DMEM (SIGMA) containing 10% FCS (SIGMA) and 50 ug/mL Zeocin (Invitrogen) under 5% CO2, 37°C condition.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	ISOGEN (Nippongene) 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 8.1 to 15 ug total RNA using GeneChip IVT Labeling Kit.
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 h at 45°C on Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
Sample_platform_id	GPL570
Sample_contact_name	Satoshi,,Takagi
Sample_contact_email	stakagi@postman.riken.jp
Sample_contact_laboratory	Antibiotics Laboratory
Sample_contact_department	ASI
Sample_contact_institute	RIKEN
Sample_contact_address	hirosawa2-1
Sample_contact_city	wako
Sample_contact_state	Saitama
Sample_contact_zip/postal_code	351-0198
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532559/suppl/GSM532559_T_R_HG133.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532559/suppl/GSM532559_T_R_HG133_Scal.CHP.gz
Sample_series_id	GSE21306
Sample_data_row_count	54675

GSM532560

GPL570

HT1080-RECK/4NQ

RECK/4NQ-overexpressing HT1080 cells (in which four N-glycosylation asparagine residues of RECK were replaced with glutamine residues)

cell line: HT1080 fibrosarcoma agent: RECK/4NQ-overexpressing (in which four N-glycosylation asparagine residues of RECK were replaced with glutamine residues)

n/a

Sample_geo_accession	GSM532560
Sample_status	Public on Apr 14 2010
Sample_submission_date	Apr 12 2010
Sample_last_update_date	Apr 13 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Permanent cell lines expressing RECK protein were established by transfecting pZeoSV2(+)-RECK or pZeoSV2(+)-RECK/4NQ into HT1080 cells followed by 50 µg/mL Zeocin (Invitrogen) selection.
Sample_growth_protocol_ch1	HT1080 cells were cultured in DMEM (SIGMA) containing 10% FCS (SIGMA) and 50 ug/mL Zeocin (Invitrogen) under 5% CO2, 37°C condition.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	ISOGEN (Nippongene) 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 8.1 to 15 ug total RNA using GeneChip IVT Labeling Kit.
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 h at 45°C on Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
Sample_platform_id	GPL570
Sample_contact_name	Satoshi,,Takagi
Sample_contact_email	stakagi@postman.riken.jp
Sample_contact_laboratory	Antibiotics Laboratory
Sample_contact_department	ASI
Sample_contact_institute	RIKEN
Sample_contact_address	hirosawa2-1
Sample_contact_city	wako
Sample_contact_state	Saitama
Sample_contact_zip/postal_code	351-0198
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532560/suppl/GSM532560_T_4_HG133.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM532nnn/GSM532560/suppl/GSM532560_T_4_HG133_Scal.CHP.gz
Sample_series_id	GSE21306
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