Result

Search results for the GEO ID: GSE48998

(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

GSM1191939

GPL570

TAGLN-overexpressing RKO cells, technical rep1

RKO cells stably expressing TAGLN

cell line: RKO cell type: colon cancer cell line stable transfection: TAGLN

TAGLN-1 Gene expression data from TAGLN-overexpressing RKO human colon cancer cells.

Sample_geo_accession	GSM1191939
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191939/suppl/GSM1191939_TAGLN-1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191939/suppl/GSM1191939_TAGLN-1.mas5.CHP.gz
Sample_series_id	GSE48998
Sample_data_row_count	54675

GSM1191940

GPL570

TAGLN-overexpressing RKO cells, technical rep2

RKO cells stably expressing TAGLN

cell line: RKO cell type: colon cancer cell line stable transfection: TAGLN

TAGLN-2 Gene expression data from TAGLN-overexpressing RKO human colon cancer cells.

Sample_geo_accession	GSM1191940
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191940/suppl/GSM1191940_TAGLN-2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191940/suppl/GSM1191940_TAGLN-2.mas5.CHP.gz
Sample_series_id	GSE48998
Sample_data_row_count	54675

GSM1191941

GPL570

TAGLN-overexpressing RKO cells, technical rep3

RKO cells stably expressing TAGLN

cell line: RKO cell type: colon cancer cell line stable transfection: TAGLN

TAGLN-3 Gene expression data from TAGLN-overexpressing RKO human colon cancer cells.

Sample_geo_accession	GSM1191941
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191941/suppl/GSM1191941_TAGLN-3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191941/suppl/GSM1191941_TAGLN-3.mas5.CHP.gz
Sample_series_id	GSE48998
Sample_data_row_count	54675

GSM1191942

GPL570

control RKO cells, technical rep1

RKO cells stably transfected with control vector

cell line: RKO cell type: colon cancer cell line stable transfection: vector control

CTRL-1 Gene expression data from control vector-transfected RKO human colon cancer cells.

Sample_geo_accession	GSM1191942
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191942/suppl/GSM1191942_CTRL-1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191942/suppl/GSM1191942_CTRL-1.mas5.CHP.gz
Sample_series_id	GSE48998
Sample_data_row_count	54675

GSM1191943

GPL570

control RKO cells, technical rep2

RKO cells stably transfected with control vector

cell line: RKO cell type: colon cancer cell line stable transfection: vector control

CTRL-2 Gene expression data from control vector-transfected RKO human colon cancer cells.

Sample_geo_accession	GSM1191943
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191943/suppl/GSM1191943_CTRL-2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191943/suppl/GSM1191943_CTRL-2.mas5.CHP.gz
Sample_series_id	GSE48998
Sample_data_row_count	54675

GSM1191944

GPL570

control RKO cells, technical rep3

RKO cells stably transfected with control vector

cell line: RKO cell type: colon cancer cell line stable transfection: vector control

CTRL-3 Gene expression data from control vector-transfected RKO human colon cancer cells.

Sample_geo_accession	GSM1191944
Sample_status	Public on Jul 18 2013
Sample_submission_date	Jul 17 2013
Sample_last_update_date	Jul 18 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	After lipofectamine-mediated transfection of the TAGLN-carrying plasmid or the vector-only control plasmid, stable transfectants were selected and cultured in medium containing 25 μg/ml blasticidin followed by RNA extraction and hybridization on Affymetrix microarrays.
Sample_growth_protocol_ch1	Cells were growing in Eagle's Minimal Essential Medium with 10% fetal bovine serum in a humidified atmosphere with 5% CO2 at 37°C.
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	Biotinylated aRNA were prepared according to the standard Affymetrix protocol (GeneChip® 3' IVT Express Kit user manual, 2010, Affymetrix).
Sample_hyb_protocol	Following fragmentation, the aRNA were hybridized with the GeneChip® Human Genome U133 Plus 2.0 Array for 16hr. After hybridization, washing and staining steps were performed with the Affymetrix Fluidics Station 450.
Sample_scan_protocol	The arrays were scanned with the Affymetrix 3000 7G Plus scanner.
Sample_data_processing	CEL files were obtained by the AGCC software, and the CHP files were generated with the MAS5.0 method by Affymetrix Expression Console. After that, the data were imported into the Agilent GeneSpring GX software for further analysis.
Sample_platform_id	GPL570
Sample_contact_name	Ying,,Lin
Sample_contact_email	linwy@mail.sysu.edu.cn
Sample_contact_department	Gastroenterology and Hepatology
Sample_contact_institute	Sun Yat-sen Memorial Hospital, Sun Yat-sen Univeristy
Sample_contact_address	107 West Yanjiang Road
Sample_contact_city	Guangzhou
Sample_contact_state	Guangdong
Sample_contact_zip/postal_code	510120
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191944/suppl/GSM1191944_CTRL-3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1191nnn/GSM1191944/suppl/GSM1191944_CTRL-3.mas5.CHP.gz
Sample_series_id	GSE48998
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