Result

Search results for the GEO ID: GSE28590

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Title

Source name

Description

Characteristics

GSM707672

GPL570

HepG2_siControl_0h

siControl-transfected HepG2 cells without TGF-beta stimulation

cell line: HepG2 cell type: human hepatoblastoma cells sirna: control treatment: none

Gene expression data from HepG2 cells without TGF-beta stimulation.

Sample_geo_accession	GSM707672
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707672/suppl/GSM707672.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

GSM707673

GPL570

HepG2_siControl_TGF-beta_1p5h

siControl-transfected HepG2 cells treated with TGF-beta for 1.5h

cell line: HepG2 cell type: human hepatoblastoma cells sirna: control treatment: TGF-beta treatment duration: 1.5 hrs

Gene expression data from HepG2 cells with TGF-beta stimulation.

Sample_geo_accession	GSM707673
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707673/suppl/GSM707673.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

GSM707674

GPL570

HepG2_siControl_TGF-beta_24h

siControl-transfected HepG2 cells treated with TGF-beta for 24h

cell line: HepG2 cell type: human hepatoblastoma cells sirna: control treatment: TGF-beta treatment duration: 24 hrs

Gene expression data from HepG2 cells with TGF-beta stimulation.

Sample_geo_accession	GSM707674
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707674/suppl/GSM707674.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

GSM707675

GPL570

HepG2_siHNF4a_0h

siHNF4a-transfected HepG2 cells without TGF-beta stimulation

cell line: HepG2 cell type: human hepatoblastoma cells sirna: HNF4a treatment: none

Gene expression data from HepG2 cells without TGF-beta stimulation.

Sample_geo_accession	GSM707675
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707675/suppl/GSM707675.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

GSM707676

GPL570

HepG2_siHNF4a_TGF-beta_1p5h

siHNF4a-transfected HepG2 cells treated with TGF-beta for 1.5h

cell line: HepG2 cell type: human hepatoblastoma cells sirna: HNF4a treatment: TGF-beta treatment duration: 1.5 hrs

Gene expression data from HepG2 cells with TGF-beta stimulation.

Sample_geo_accession	GSM707676
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707676/suppl/GSM707676.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

GSM707677

GPL570

HepG2_siHNF4a_TGF-beta_24h

siHNF4a-transfected HepG2 cells treated with TGF-beta for 24h

cell line: HepG2 cell type: human hepatoblastoma cells sirna: HNF4a treatment: TGF-beta treatment duration: 24 hrs

Gene expression data from HepG2 cells with TGF-beta stimulation.

Sample_geo_accession	GSM707677
Sample_status	Public on Jun 08 2011
Sample_submission_date	Apr 13 2011
Sample_last_update_date	Jun 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transfected with siRNAs and stimulated with 3 ng/ml of TGF-beta for the indicated times.
Sample_growth_protocol_ch1	HepG2 cells (ATCC) were maintained in MEM medium (GIBCO) supplemented with 10% FBS (Thermo Scientific, Rockford, IL), 0.1 mM non-essential amino acids, 1 mM sodium pyruvate, 100 U/ml of penicillin G, and 100 µg/ml of streptomycin. Cells were grown in a humidified incubator with 5% CO2 at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNAs were extracted using the RNeasy mini kit (QIAGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized with the SuperScript Choice system (GIBCO) and a T7-(dT) 24 Primer (GE Amersham) from the total RNA. In vitro transcription was performed to produce biotin-labeled cRNA by using a BioArray HighYield RNA Transcript Labeling Kit (Affymetrix) according to the manufacturer’s instructions (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_hyb_protocol	Array hybridization was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_scan_protocol	Array scanning was performed as described previously (Ishii et al, Genomics 68:136-143, 2000 [PMID 10964511]).
Sample_data_processing	Microarray Suite software 5.0 of GCOS (Affymetrix) was used with target intensity of 100.
Sample_platform_id	GPL570
Sample_contact_name	Daizo,,Koinuma
Sample_contact_email	d-koinuma@umin.ac.jp
Sample_contact_department	Molecular Pathology
Sample_contact_institute	University of Tokyo
Sample_contact_address	Hongo 7-3-1, Bunkyo-ku
Sample_contact_city	Tokyo
Sample_contact_zip/postal_code	113-0033
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM707nnn/GSM707677/suppl/GSM707677.CEL.gz
Sample_series_id	GSE28590
Sample_series_id	GSE28798
Sample_data_row_count	54675

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