Result

Search results for the GEO ID: GSE16934

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM424515

GPL570

SCP51, biological rep1

high metastatic variant SCP51

cell line: SW480 scp: SCP51 metastatic potential: high

Sample_geo_accession	GSM424515
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424515/suppl/GSM424515.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424516

GPL570

SCP51, biological rep2

high metastatic variant SCP51

cell line: SW480 scp: SCP51 metastatic potential: high

Sample_geo_accession	GSM424516
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424516/suppl/GSM424516.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424517

GPL570

SCP51, biological rep3

high metastatic variant SCP51

cell line: SW480 scp: SCP51 metastatic potential: high

Sample_geo_accession	GSM424517
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424517/suppl/GSM424517.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424518

GPL570

SW480/EGFP, biological rep1

parent SW480/EGFP

cell line: SW480

Sample_geo_accession	GSM424518
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424518/suppl/GSM424518.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424519

GPL570

SW480/EGFP, biological rep2

parent SW480/EGFP

cell line: SW480

Sample_geo_accession	GSM424519
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424519/suppl/GSM424519.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424520

GPL570

SW480/EGFP, biological rep3

parent SW480/EGFP

cell line: SW480

Sample_geo_accession	GSM424520
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424520/suppl/GSM424520.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424521

GPL570

SCP58, biological rep1

low metastatic variant SCP58

cell line: SW480 scp: SCP58 metastatic potential: low

Sample_geo_accession	GSM424521
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424521/suppl/GSM424521.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424522

GPL570

SCP58, biological rep2

low metastatic variant SCP58

cell line: SW480 scp: SCP58 metastatic potential: low

Sample_geo_accession	GSM424522
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424522/suppl/GSM424522.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

GSM424523

GPL570

SCP58, biological rep3

low metastatic variant SCP58

cell line: SW480 scp: SCP58 metastatic potential: low

Sample_geo_accession	GSM424523
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 02 2009
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_growth_protocol_ch1	SW480/EGFP, and SCPs derived from SW480/EGFP, were cultured in RPMI 1640 medium (Gibco, Grand Island, NY, USA) supplemented with 10% fetal bovine serum (Hyclone, Logan, UT, USA) and 100 U/ml penicillin/streptomycin (Gibco). The cell lines were maintained in a humidified chamber with 5% CO2 at 37°C. A surgical orthotopic implantation model of murine CRC was performed as described previously to compare metastatic potentials of SCPs and their parent SW480/EGFP.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from samples using an RNeasy kit (Qiagen, Chatsworth, CA, USA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with 5–10 µg purified total RNA with oligo d(T)24 T7 primer and transcribed into biotinylated cRNA using the IVT Labeling Kit (Affymetrix).
Sample_hyb_protocol	The biotinylated cRNA were fragmented at 94℃ for 35 min and hybridized to human Genome U133 Plus 2.0 gene chip array (Affymetrix). The GeneChip arrays were washed and then stained (streptavidin–phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
Sample_scan_protocol	GeneChips were scanned using a GeneChip Scanner 3000.
Sample_data_processing	The hybridization data were analyzed using GeneChip Operating software (GCOS 1.4). The scanned images were first assessed by visual inspection then analyzed to generate raw data files saved as CEL files using the default setting of GCOS 1.4. A global scaling procedure was performed to normalize the different arrays using dChip software.
Sample_platform_id	GPL570
Sample_contact_name	Jianming,,Li
Sample_contact_institute	Southern Medical University
Sample_contact_address	Guangzhou North Road
Sample_contact_city	Guangzhou
Sample_contact_zip/postal_code	510515
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM424nnn/GSM424523/suppl/GSM424523.CEL.gz
Sample_series_id	GSE16934
Sample_data_row_count	54675

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