Result

Search results for the GEO ID: GSE47685

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Title

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Description

Characteristics

GSM1154785

GPL570

Untreated native HeLa cells 1

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: Untreated

Med = Medium

Sample_geo_accession	GSM1154785
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154785/suppl/GSM1154785_HeLa_Med_-_1_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154785/suppl/GSM1154785_HeLa_Med_-_1_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

GSM1154786

GPL570

Untreated native HeLa cells 2

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: Untreated

Med = Medium

Sample_geo_accession	GSM1154786
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154786/suppl/GSM1154786_HeLa_Med_-_2_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154786/suppl/GSM1154786_HeLa_Med_-_2_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

GSM1154787

GPL570

siRNA LMG2 treated HeLa cells 1

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: siRNA LMG2

siRNA = silencing RNA

Sample_geo_accession	GSM1154787
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154787/suppl/GSM1154787_HeLa_LMG2_-_1_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154787/suppl/GSM1154787_HeLa_LMG2_-_1_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

GSM1154788

GPL570

siRNA LMG2 treated HeLa cells 2

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: siRNA LMG2

siRNA = silencing RNA

Sample_geo_accession	GSM1154788
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154788/suppl/GSM1154788_HeLa_LMG2_-_2_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154788/suppl/GSM1154788_HeLa_LMG2_-_2_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

GSM1154789

GPL570

siRNA LMG4 treated HeLa cells 1

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: siRNA LMG4

siRNA = silencing RNA

Sample_geo_accession	GSM1154789
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154789/suppl/GSM1154789_HeLa_LMG4_-_1_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154789/suppl/GSM1154789_HeLa_LMG4_-_1_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

GSM1154790

GPL570

siRNA LMG4 treated HeLa cells 2

HeLa, epithelial cells, adenocarcinoma (CCL-2; American Tissue Culture Collection ATCC, Manassas, VA, USA)

treatment: siRNA LMG4

siRNA = silencing RNA

Sample_geo_accession	GSM1154790
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_biomaterial_provider_ch1	http://www.lgcstandards-atcc.org/Products/All/CCL-2.2.aspx
Sample_treatment_protocol_ch1	2e4 HeLa cells/well were seeded in a 96-well plate for 20 h prior to transfection with siRNAs LMG2 and LMG4. Cells were transfected in triplicates with 1 µl of siRNA (50 nM/well).
Sample_growth_protocol_ch1	HeLa cells cultured at 37°C and 5% CO2 in RPMI 1640 medium supplemented with 10% fetal calf serum and 1% streptomycin/penicillin (Biochrome; Berlin; Germany).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was isolated after 48 h post transfection using the RNeasy 96 BioRobot® 8000 (Qiagen). Knockdown rates were independently measured three times by quantitative PCR using the Quantitec SYBR Green RT-PCR Kit according to Qiagen protocol. Total RNA was treated with DNAse-I (Quiagen). Quality of RNA samples was assessed by micro fluidic technology using the Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany) and the RNA 6000 Nano Assay Kit (Agilent Technologies). RNA quantity and 260/280 ratios were measured in a NanoDrop 1000 (NanoDrop Technologies, Wilmington, USA). Only RNA samples which fulfilled the criteria of RNA quality required for microarray analysis (28S/18S RNA ratio >2.2; RIN value >7) were used for labelling.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	After extraction RNA was converted to cDNA, amplified to cRNA and labelled with Biotin according to the manufacturer instruction manual (Affymetrix).
Sample_hyb_protocol	Hybridisation to Affymetrix™ GeneChip Human Genome U133 Plus 2.0 microarrays was perforemd with Biotin labelled cRNAs according to the manufacturer (Affymetrix).
Sample_scan_protocol	The microarray chips were washed and scanned at 560 nm in a Affymetrix GeneChip Scanner according to the insturctions of the manufacturer (Affymetrix).
Sample_data_processing	The data were analyzed by the Affymetrix GCOS software with default analysis settings. BioRetis database was used for the statistical analyses (www.bioretis.com).
Sample_platform_id	GPL570
Sample_contact_name	Bruno,,Stuhlmueller
Sample_contact_email	bruno.stuhlmueller@charite.de
Sample_contact_phone	+49 30 450 513168
Sample_contact_fax	+49 30 450 513968
Sample_contact_laboratory	RFL
Sample_contact_department	Rheumatology and Clinical Immunology
Sample_contact_institute	Charité Universitiy Hospital
Sample_contact_address	Charitéplatz 1
Sample_contact_city	Berlin
Sample_contact_state	Berlin
Sample_contact_zip/postal_code	10117
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154790/suppl/GSM1154790_HeLa_LMG4_-_2_U133P.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1154nnn/GSM1154790/suppl/GSM1154790_HeLa_LMG4_-_2_U133P.CHP.gz
Sample_series_id	GSE47685
Sample_data_row_count	54675

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