Search results for the GEO ID: GSE14334 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM358631 | GPL570 |
|
Human fetal lung 76 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17470
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: Unknown
microarray hybridization data 05/27/2005
cross validation: test sample
|
human fetal lung 76 dpc biological replicate 1
|
Sample_geo_accession | GSM358631
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358631/suppl/GSM358631.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358632 | GPL570 |
|
Human fetal lung 110 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17486
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: Unknown
microarray hybridization data 05/27/2005
cross validation: training sample
|
human fetal lung 110 dpc biological replicate 1
|
Sample_geo_accession | GSM358632
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358632/suppl/GSM358632.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358633 | GPL570 |
|
Human fetal lung 63 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17657
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: test sample
|
human fetal lung 63 dpc biological replicate 1
|
Sample_geo_accession | GSM358633
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358633/suppl/GSM358633.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358634 | GPL570 |
|
Human fetal lung 63 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18338
Sex: Female
Race: Pacific Islander
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: training sample
|
human fetal lung 63 dpc biological replicate 2
|
Sample_geo_accession | GSM358634
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358634/suppl/GSM358634.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358635 | GPL570 |
|
Human fetal lung 108 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18355
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: test sample
|
human fetal lung 108 dpc biological replicate 1
|
Sample_geo_accession | GSM358635
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358635/suppl/GSM358635.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358636 | GPL570 |
|
Human fetal lung 103 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18356
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: test sample
|
human fetal lung 103 dpc
|
Sample_geo_accession | GSM358636
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358636/suppl/GSM358636.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358637 | GPL570 |
|
Human fetal lung 76 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18401
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: training sample
|
human fetal lung 76 dpc biological replicate 2
|
Sample_geo_accession | GSM358637
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358637/suppl/GSM358637.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358638 | GPL570 |
|
Human fetal lung 72 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18419
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: training sample
|
human fetal lung 72 dpc
|
Sample_geo_accession | GSM358638
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358638/suppl/GSM358638.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358639 | GPL570 |
|
Human fetal lung 105 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18450
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: training sample
|
human fetal lung 105 dpc
|
Sample_geo_accession | GSM358639
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358639/suppl/GSM358639.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358640 | GPL570 |
|
Human fetal lung 108 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18475
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 05/27/2005
cross validation: test sample
|
human fetal lung 108 dpc biological replicate 2
|
Sample_geo_accession | GSM358640
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358640/suppl/GSM358640.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358641 | GPL570 |
|
Human fetal lung 140 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB0045
Sex: Male
Race: African American
Disease Status: Control
Post-Mortem Interval: 2 hrs
microarray hybridization data 11/02/2005
cross validation: test sample
|
human fetal lung 140 dpc biological replicate 1
|
Sample_geo_accession | GSM358641
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358641/suppl/GSM358641.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358642 | GPL570 |
|
Human fetal lung 154 dpc
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB0684
Sex: Male
Race: Caucasian
Disease Status: Tuberous Sclerosis
Post-Mortem Interval: 5 hrs
microarray hybridization data 11/02/2005
cross validation: test sample
|
human fetal lung 154 dpc
|
Sample_geo_accession | GSM358642
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358642/suppl/GSM358642.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358643 | GPL570 |
|
Human fetal lung 134 dpc
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1566
Sex: Male
Race: African American
Disease Status: Control
Post-Mortem Interval: 6 hrs
microarray hybridization data 11/02/2005
cross validation: training sample
|
human fetal lung 134 dpc
|
Sample_geo_accession | GSM358643
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358643/suppl/GSM358643.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358644 | GPL570 |
|
Human fetal lung 133 dpc biological replicate 1
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1589
Sex: Female
Race: African American
Disease Status: Control
Post-Mortem Interval: 2 hrs
microarray hybridization data 11/02/2005
cross validation: test sample
|
human fetal lung 133 dpc biological replicate 1
|
Sample_geo_accession | GSM358644
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358644/suppl/GSM358644.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358645 | GPL570 |
|
Human fetal lung 130 dpc
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1621
Sex: Male
Race: Caucasian
Disease Status: Control
Post-Mortem Interval: 1 hrs
microarray hybridization data 11/02/2005
cross validation: training sample
|
human fetal lung 130 dpc
|
Sample_geo_accession | GSM358645
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358645/suppl/GSM358645.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358646 | GPL570 |
|
Human fetal lung 133 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1631
Sex: Male
Race: African American
Disease Status: Control
Post-Mortem Interval: 2 hrs
microarray hybridization data 11/02/2005
cross validation: training sample
|
human fetal lung 133 dpc biological replicate 2
|
Sample_geo_accession | GSM358646
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358646/suppl/GSM358646.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358647 | GPL570 |
|
Human fetal lung 140 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1635
Sex: Male
Race: African American
Disease Status: Control
Post-Mortem Interval: 1 hrs
microarray hybridization data 11/02/2005
cross validation: training sample
|
human fetal lung 140 dpc biological replicate 2
|
Sample_geo_accession | GSM358647
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358647/suppl/GSM358647.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358648 | GPL570 |
|
Human fetal lung 133 dpc biological replicate 3
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1690
Sex: Male
Race: Caucasian
Disease Status: Anencephaly
Post-Mortem Interval: 1 hrs
microarray hybridization data 02/04/2006
cross validation: test sample
|
human fetal lung 133 dpc biological replicate 3
|
Sample_geo_accession | GSM358648
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358648/suppl/GSM358648.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358649 | GPL570 |
|
Human fetal lung 133 dpc biological replicate 4
|
whole lung human fetus
|
LabID: University of Maryland Brain and Tissue Bank for Developmental Disorders (Baltimore, MD) ID# UMB1776
Sex: Female
Race: African American
Disease Status: Control
Post-Mortem Interval: 1 hrs
microarray hybridization data 02/04/2006
cross validation: training sample
|
human fetal lung 133 dpc biological replicate 4
|
Sample_geo_accession | GSM358649
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358649/suppl/GSM358649.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358650 | GPL570 |
|
Human fetal lung 78 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17574
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 78 dpc
|
Sample_geo_accession | GSM358650
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358650/suppl/GSM358650.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358651 | GPL570 |
|
Human fetal lung 89 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17920
Sex: Male
Race: Caucasian
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 89 dpc
|
Sample_geo_accession | GSM358651
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358651/suppl/GSM358651.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358652 | GPL570 |
|
Human fetal lung 87 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18480
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: test sample
|
human fetal lung 87 dpc
|
Sample_geo_accession | GSM358652
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358652/suppl/GSM358652.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358653 | GPL570 |
|
Human fetal lung 113 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18484
Sex: Male
Race: Caucasian
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 113 dpc
|
Sample_geo_accession | GSM358653
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358653/suppl/GSM358653.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358654 | GPL570 |
|
Human fetal lung 83 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18606
Sex: Male
Race: Caucasian
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: test sample
|
human fetal lung 83 dpc
|
Sample_geo_accession | GSM358654
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358654/suppl/GSM358654.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358655 | GPL570 |
|
Human fetal lung 98 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18875
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 98 dpc
|
Sample_geo_accession | GSM358655
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358655/suppl/GSM358655.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358656 | GPL570 |
|
Human fetal lung 74 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18877
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: test sample
|
human fetal lung 74 dpc
|
Sample_geo_accession | GSM358656
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358656/suppl/GSM358656.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358657 | GPL570 |
|
Human fetal lung 59 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19128
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 59 dpc
|
Sample_geo_accession | GSM358657
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358657/suppl/GSM358657.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358658 | GPL570 |
|
Human fetal lung 96 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19313
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 96 dpc
|
Sample_geo_accession | GSM358658
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358658/suppl/GSM358658.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358659 | GPL570 |
|
Human fetal lung 122 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19896
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: test sample
|
human fetal lung 122 dpc
|
Sample_geo_accession | GSM358659
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358659/suppl/GSM358659.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358660 | GPL570 |
|
Human fetal lung 85 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19908
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 08/08/2006
cross validation: training sample
|
human fetal lung 85 dpc
|
Sample_geo_accession | GSM358660
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358660/suppl/GSM358660.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358661 | GPL570 |
|
Human fetal lung 110 dpc biological replicate 2
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H17486
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: Unknown
microarray hybridization data 12/12/2006
cross validation: test sample
|
human fetal lung 110 dpc biological replicate 2
|
Sample_geo_accession | GSM358661
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358661/suppl/GSM358661.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358662 | GPL570 |
|
Human fetal lung 101 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18402
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: test sample
|
human fetal lung 101 dpc
|
Sample_geo_accession | GSM358662
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358662/suppl/GSM358662.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358663 | GPL570 |
|
Human fetal lung 108 dpc biological replicate 3
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H18475
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: training sample
|
human fetal lung 108 dpc biological replicate 3
|
Sample_geo_accession | GSM358663
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358663/suppl/GSM358663.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358664 | GPL570 |
|
Human fetal lung 117 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19120
Sex: Female
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: training sample
|
human fetal lung 117 dpc
|
Sample_geo_accession | GSM358664
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358664/suppl/GSM358664.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358665 | GPL570 |
|
Human fetal lung 91 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19967
Sex: Male
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: test sample
|
human fetal lung 91 dpc
|
Sample_geo_accession | GSM358665
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358665/suppl/GSM358665.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358666 | GPL570 |
|
Human fetal lung 94 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H19998
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: training sample
|
human fetal lung 94 dpc
|
Sample_geo_accession | GSM358666
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358666/suppl/GSM358666.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358667 | GPL570 |
|
Human fetal lung 82 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H20022
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: training sample
|
human fetal lung 82 dpc
|
Sample_geo_accession | GSM358667
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358667/suppl/GSM358667.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
GSM358668 | GPL570 |
|
Human fetal lung 53 dpc
|
whole lung human fetus
|
LabID: University of Washington Center for Birth Defects Research (Seattle, WA) ID# H20029
Sex: Unknown
Race: Unknown
Disease Status: Control
Post-Mortem Interval: <2 hrs
microarray hybridization data 12/12/2006
cross validation: test sample
|
human fetal lung 53 dpc
|
Sample_geo_accession | GSM358668
| Sample_status | Public on Sep 10 2009
| Sample_submission_date | Jan 08 2009
| Sample_last_update_date | Sep 10 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | For each experimental sample, RNA quality was assessed by RNA Nano LabChip analysis on an Agilent Bioanalyzer 2100. Concentrations may also be determined using a NanoDrop 1000 spectrophotometer. Under standard conditions processing of RNAs for GeneChip Analysis was in accordance with methods described in the Affymetrix GeneChip Expression Analysis Technical Manual, revision four, as subsequently detailed. Synthesis of cDNA first and second strand is performed using the GeneChip Expression 3’-Amplification Reagents One-Cycle cDNA Synthesis Kit (P/N 900431). Cleanup of the double stranded product is carried according to standard Affymetrix protocols using the Affymetrix GeneChip Cleanup Module (Affymetrix Catalog # 900371).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | In vitro transcription (IVT) is performed using the GeneChip Expression Amplification Reagents kit- 30 reactions (P/N 900449) and is carried out according to the standard Affymetrix protocols and quantification of the IVT samples is carried out on a Bio-Tek UV Plate Reader.
| Sample_hyb_protocol | Hybridization is carried out according the Affymetrix GeneChip® Manual. Twenty micrograms of IVT material is the nominal amount used on the GeneChip® arrays. Affymetrix hybridization ovens are used to incubate the arrays at a constant temperature of 45oC overnight. Preparation of microarrays for scanning is carried out with Affymetrix appropriate wash protocols matched to the specific chip type on a Model 450 Fluidics station. Affymetrix GeneChip Operating Software (GCOS) operating system controls the Fluidics station process.
| Sample_scan_protocol | Scanning is carried out on a GeneChip® Scanner 3000 7G scanner with autoloader. The Affymetrix GCOS v1.3 operating system controls the Model 3000 7G scanner and data acquisition functions. GCOS maintains the mediated first level data analysis and desktop data management for the entire GeneChip System.
| Sample_data_processing | All 38 sample CEL files were inputted into Bioconductor/R to derive Robust Multi-Array Average (RMA) normalized output.
| Sample_platform_id | GPL570
| Sample_contact_name | Alvin,T.,Kho
| Sample_contact_email | alvin_kho@hms.harvard.edu
| Sample_contact_phone | 617-355-6393
| Sample_contact_department | Informatics Program
| Sample_contact_institute | Boston Children's Hospital
| Sample_contact_address | 320 Longwood Avenue
| Sample_contact_city | Boston
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02115
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM358nnn/GSM358668/suppl/GSM358668.CEL.gz
| Sample_series_id | GSE14334
| Sample_data_row_count | 54675
| |
|
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