Search results for the GEO ID: GSE10979  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM277917 | GPL570 |
|
FL cells, at 1 h after exposure to DMSO vehicle control, biological rep1
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277917
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277917/suppl/GSM277917.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277917/suppl/GSM277917.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277918 | GPL570 |
|
FL cells, at 1 h after exposure to DMSO vehicle control, biological rep2
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277918
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277918/suppl/GSM277918.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277918/suppl/GSM277918.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277919 | GPL570 |
|
FL cells, at 1 h after exposure to DMSO vehicle control, biological rep3
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277919
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277919/suppl/GSM277919.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277919/suppl/GSM277919.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277920 | GPL570 |
|
FL cells, at 1 h after exposure to 0.05 µM BPDE, biological rep1
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277920
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277920/suppl/GSM277920.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277920/suppl/GSM277920.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277921 | GPL570 |
|
FL cells, at 1 h after exposure to 0.05 µM BPDE, biological rep2
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277921
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277921/suppl/GSM277921.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277921/suppl/GSM277921.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277922 | GPL570 |
|
FL cells, at 1 h after exposure to 0.05 µM BPDE, biological rep3
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 1 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277922
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277922/suppl/GSM277922.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277922/suppl/GSM277922.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277923 | GPL570 |
|
FL cells, at 10 h after exposure to DMSO vehicle control, biological rep1
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277923
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277923/suppl/GSM277923.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277923/suppl/GSM277923.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277924 | GPL570 |
|
FL cells, at 10 h after exposure to DMSO vehicle control, biological rep2
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277924
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277924/suppl/GSM277924.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277924/suppl/GSM277924.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277925 | GPL570 |
|
FL cells, at 10 h after exposure to DMSO vehicle control, biological rep3
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277925
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277925/suppl/GSM277925.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277925/suppl/GSM277925.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277926 | GPL570 |
|
FL cells, at 10 h after exposure to 0.05 µM BPDE, biological rep1
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277926
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277926/suppl/GSM277926.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277926/suppl/GSM277926.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277927 | GPL570 |
|
FL cells, at 10 h after exposure to 0.05 µM BPDE, biological rep2
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277927
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277927/suppl/GSM277927.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277927/suppl/GSM277927.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277928 | GPL570 |
|
FL cells, at 10 h after exposure to 0.05 µM BPDE, biological rep3
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 10 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277928
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277928/suppl/GSM277928.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277928/suppl/GSM277928.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277929 | GPL570 |
|
FL cells, at 22 h after exposure to DMSO vehicle control, biological rep1
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 22 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277929
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277929/suppl/GSM277929.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277929/suppl/GSM277929.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277930 | GPL570 |
|
FL cells, at 22 h after exposure to DMSO vehicle control, biological rep2
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 22 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277930
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277930/suppl/GSM277930.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277930/suppl/GSM277930.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277931 | GPL570 |
|
FL cells, at 22 h after exposure to DMSO vehicle control, biological rep3
|
FL cells exposed to DMSO vehicle control for 2 h, and subsequently recovered for additional 22 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to DMSO vehicle control
|
| Sample_geo_accession | GSM277931
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277931/suppl/GSM277931.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277931/suppl/GSM277931.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277932 | GPL570 |
|
FL cells, at 22 h after exposure to 0.05 µM BPDE, biological rep1
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 22 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277932
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277932/suppl/GSM277932.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277932/suppl/GSM277932.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
| | |
|
GSM277934 | GPL570 |
|
FL cells, at 22 h after exposure to 0.05 µM BPDE, biological rep3
|
FL cells exposed to 0.05 µM BPDE for 2 h, and subsequently recovered for additional 22 h
|
human amnion epithelial FL cells
Gender: female
|
Gene expression data from FL cells exposed to 5 nM BPDE
|
| Sample_geo_accession | GSM277934
| | Sample_status | Public on Jan 01 2009
| | Sample_submission_date | Mar 28 2008
| | Sample_last_update_date | Mar 31 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | At the logarithmic growth phase, the cultures were exposed to vehicle control (0.1%, V/V) and a low concentration (0.05 µM) BPDE for 2 h in a culture medium that did not contain 10% newborn bovine serum, followed by additional growth for 1, 10 and 22 h, respectively, in a fresh medium containing 10% newborn bovine serum. The cultures were rinsed twice with phosphate buffer solution before change of the medium.
| | Sample_growth_protocol_ch1 | Human amnion epithelial FL cells were grown as monolayers in minimal essential medium (MEM, Gibco-Invitrogen, Carlsbad, CA) supplemented with 10% newborn bovine serum (Gibco-Invitrogen), 100 U/mL penicillin, and 100 µg/mL streptomycin in a humidified atmosphere of 5% CO2 at 37°C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with Trizol reagents (Invitrogen), and further purified using RNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturers’ protocols. Isolated total RNA was analyzed on an Agilent Bioanalyzer 2100 to verify that the starting material was of good quality.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual, rev.3. 2001)
| | Sample_hyb_protocol | The biotinlyated cRNAs were fragmented and hybridized to the microarrays at 45°C for 16 h in the Hybridization Oven 640 rotating at 60 rpm. Following hybridization, the microarrays were washed and stained with streptavidin-phycoerythrin in the Fluidics Station 400,
| | Sample_scan_protocol | Based on the Affymetrix Microarray Suite 5.0 platform, GeneChips were scanned using the GeneChip Scanner 3000, and original Affymetrix .dat proprietary output files were generated.
| | Sample_data_processing | The probe level data was manipulated using MAS5.0 algorithm, and the average intensity of each array was globally scaled to a target of 500. Data normalization and differential expression analysis using ANOVA (analysis of variation) statistical method was performed in Gene Spring 7.0 software. A probe set was delimited as differentially expressed if it had “Present” detection calls and exhibited p value <0.05 across the comparison of three controls and three treatments.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lu,,XiangYun
| | Sample_contact_email | present81@163.com
| | Sample_contact_institute | Zhejiang University School of Medicine
| | Sample_contact_address | 388 Yuhangtang Road
| | Sample_contact_city | Hangzhou
| | Sample_contact_zip/postal_code | 310058
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277934/suppl/GSM277934.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277934/suppl/GSM277934.EXP.gz
| | Sample_series_id | GSE10979
| | Sample_data_row_count | 54675
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