Result

Search results for the GEO ID: GSE20569

(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

GSM516898

GPL570

CA 9- transfected C33-A

C33-A cell line transfected with full-length human CA 9 cDNA / pcDNA3.0 DNA construct

morphology: epithelial growth properties: adherent organ: Cervix disease: carcinoma cell line: C33-A

Gene expression data from C33-A expressing CA9 protein fiercely

Sample_geo_accession	GSM516898
Sample_status	Public on Mar 02 2010
Sample_submission_date	Mar 01 2010
Sample_last_update_date	Mar 01 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	Cells were maintained at 5% CO2 in RPMI medium with 10% fetal bovine serum supplemented with 1% Streptomycin and Penicillin.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted at fourth day after seeding with 5x105 cells/ml on 100mmx20 dish.
Sample_extract_protocol_ch1	Total RNA was prepared using a TRIzol® (Invitrogen, Carlsbad, CA, USA) method, followed by the clean-up with the RNeasy® Mini kit isolation method (Qiagen GmbH, Hilden, Germany). The purity and integrity of the total RNA were checked using the NanoDrop (NanoDrop Technologies) and the Experion (Biorad), respectively.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocols from 5ug total RNA
Sample_hyb_protocol	Following fragmentation, 10~15ug of labeled cRNA were hybridized on the Human Genome U133 Plus 2.0 arrays at 45°C for 16hr, according to the Affymetrix standard protocol. After hybridization, the arrays were washed in a GeneChip Fluidics Station 450 with a non-stringent wash buffer at 25°C followed by a stringent wash buffer at 50°C. After washing, the arrays were stained with a streptavidin-phycoerythrin complex.
Sample_scan_protocol	After staining, intensities were determined with a GeneChip scanner 3000 (Affymetrix)
Sample_data_processing	Scanned data were processed using APT(Affymetrix Power Tool) program, RMA(Robust Multiarray Average) as quantification method, Quantile as normalization method and PM-only as PM intensity adjustment.
Sample_platform_id	GPL570
Sample_contact_name	Hye-Jin,,Shin
Sample_contact_email	aaron0502@hanmail.net
Sample_contact_phone	+82-31-920-2384
Sample_contact_department	Research Institute and Hospital
Sample_contact_institute	National Cancer Center
Sample_contact_address	323 Ilsan-ro, Ilsandong-gu
Sample_contact_city	Goyang-si
Sample_contact_state	Gyeonggi-do
Sample_contact_zip/postal_code	410-769
Sample_contact_country	South Korea
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516898/suppl/GSM516898.CEL.gz
Sample_series_id	GSE20569
Sample_data_row_count	54675

GSM516899

GPL570

Mock-transfected C33-A

C33-A cell line transfected with empty vector DNA

morphology: epithelial growth properties: adherent organ: Cervix disease: carcinoma cell line: C33-A

Gene expression data from C33-A Control

Sample_geo_accession	GSM516899
Sample_status	Public on Mar 02 2010
Sample_submission_date	Mar 01 2010
Sample_last_update_date	Mar 01 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	Cells were maintained at 5% CO2 in RPMI medium with 10% fetal bovine serum supplemented with 1% Streptomycin and Penicillin.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted at fourth day after seeding with 5x105 cells/ml on 100mmx20 dish.
Sample_extract_protocol_ch1	Total RNA was prepared using a TRIzol® (Invitrogen, Carlsbad, CA, USA) method, followed by the clean-up with the RNeasy® Mini kit isolation method (Qiagen GmbH, Hilden, Germany). The purity and integrity of the total RNA were checked using the NanoDrop (NanoDrop Technologies) and the Experion (Biorad), respectively.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocols from 5ug total RNA
Sample_hyb_protocol	Following fragmentation, 10~15ug of labeled cRNA were hybridized on the Human Genome U133 Plus 2.0 arrays at 45°C for 16hr, according to the Affymetrix standard protocol. After hybridization, the arrays were washed in a GeneChip Fluidics Station 450 with a non-stringent wash buffer at 25°C followed by a stringent wash buffer at 50°C. After washing, the arrays were stained with a streptavidin-phycoerythrin complex.
Sample_scan_protocol	After staining, intensities were determined with a GeneChip scanner 3000 (Affymetrix)
Sample_data_processing	Scanned data were processed using APT(Affymetrix Power Tool) program, RMA(Robust Multiarray Average) as quantification method, Quantile as normalization method and PM-only as PM intensity adjustment.
Sample_platform_id	GPL570
Sample_contact_name	Hye-Jin,,Shin
Sample_contact_email	aaron0502@hanmail.net
Sample_contact_phone	+82-31-920-2384
Sample_contact_department	Research Institute and Hospital
Sample_contact_institute	National Cancer Center
Sample_contact_address	323 Ilsan-ro, Ilsandong-gu
Sample_contact_city	Goyang-si
Sample_contact_state	Gyeonggi-do
Sample_contact_zip/postal_code	410-769
Sample_contact_country	South Korea
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM516nnn/GSM516899/suppl/GSM516899.CEL.gz
Sample_series_id	GSE20569
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