Search results for the GEO ID: GSE24290 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM597451 | GPL10526 |
|
progressive sural nerve, patient 1
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597451
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597451/suppl/GSM597451.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597452 | GPL10526 |
|
progressive sural nerve, patient 2
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597452
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597452/suppl/GSM597452.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597453 | GPL10526 |
|
progressive sural nerve, patient 3
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597453
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597453/suppl/GSM597453.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597454 | GPL10526 |
|
progressive sural nerve, patient 4
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597454
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597454/suppl/GSM597454.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597455 | GPL10526 |
|
progressive sural nerve, patient 5
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597455
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597455/suppl/GSM597455.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597456 | GPL10526 |
|
progressive sural nerve, patient 6
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597456
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597456/suppl/GSM597456.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597457 | GPL10526 |
|
progressive sural nerve, patient 7
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597457
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597457/suppl/GSM597457.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597458 | GPL10526 |
|
progressive sural nerve, patient 8
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597458
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597458/suppl/GSM597458.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597459 | GPL10526 |
|
progressive sural nerve, patient 9
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597459
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597459/suppl/GSM597459.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597460 | GPL10526 |
|
progressive sural nerve, patient 10
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597460
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597460/suppl/GSM597460.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597461 | GPL10526 |
|
progressive sural nerve, patient 11
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597461
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597461/suppl/GSM597461.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597462 | GPL10526 |
|
progressive sural nerve, patient 12
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597462
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597462/suppl/GSM597462.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597463 | GPL10526 |
|
progressive sural nerve, patient 13
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597463
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597463/suppl/GSM597463.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597464 | GPL10526 |
|
progressive sural nerve, patient 14
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597464
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597464/suppl/GSM597464.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597465 | GPL10526 |
|
progressive sural nerve, patient 15
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597465
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597465/suppl/GSM597465.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597466 | GPL10526 |
|
progressive sural nerve, patient 16
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597466
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597466/suppl/GSM597466.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597467 | GPL10526 |
|
progressive sural nerve, patient 17
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597467
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597467/suppl/GSM597467.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597468 | GPL10526 |
|
progressive sural nerve, patient 18
|
progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597468
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597468/suppl/GSM597468.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597469 | GPL10526 |
|
non-progressive sural nerve, patient 1
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597469
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597469/suppl/GSM597469.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597470 | GPL10526 |
|
non-progressive sural nerve, patient 2
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597470
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597470/suppl/GSM597470.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597471 | GPL10526 |
|
non-progressive sural nerve, patient 3
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597471
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597471/suppl/GSM597471.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597472 | GPL10526 |
|
non-progressive sural nerve, patient 4
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597472
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597472/suppl/GSM597472.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597473 | GPL10526 |
|
non-progressive sural nerve, patient 5
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597473
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597473/suppl/GSM597473.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597474 | GPL10526 |
|
non-progressive sural nerve, patient 6
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597474
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597474/suppl/GSM597474.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597475 | GPL10526 |
|
non-progressive sural nerve, patient 7
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597475
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597475/suppl/GSM597475.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597476 | GPL10526 |
|
non-progressive sural nerve, patient 8
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597476
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597476/suppl/GSM597476.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597477 | GPL10526 |
|
non-progressive sural nerve, patient 9
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597477
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597477/suppl/GSM597477.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597478 | GPL10526 |
|
non-progressive sural nerve, patient 10
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597478
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597478/suppl/GSM597478.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597479 | GPL10526 |
|
non-progressive sural nerve, patient 11
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597479
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597479/suppl/GSM597479.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597480 | GPL10526 |
|
non-progressive sural nerve, patient 12
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597480
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597480/suppl/GSM597480.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597481 | GPL10526 |
|
non-progressive sural nerve, patient 13
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597481
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597481/suppl/GSM597481.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597482 | GPL10526 |
|
non-progressive sural nerve, patient 14
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597482
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597482/suppl/GSM597482.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597483 | GPL10526 |
|
non-progressive sural nerve, patient 15
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597483
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597483/suppl/GSM597483.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
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GSM597484 | GPL10526 |
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non-progressive sural nerve, patient 16
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non-progressive DN sural nerve 52 weeks
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tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597484
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597484/suppl/GSM597484.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
|
GSM597485 | GPL10526 |
|
non-progressive sural nerve, patient 17
|
non-progressive DN sural nerve 52 weeks
|
tissue: sural nerve
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM597485
| Sample_status | Public on Sep 24 2010
| Sample_submission_date | Sep 23 2010
| Sample_last_update_date | Sep 23 2010
| 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 | Total RNA was isolated from a 1 cm segment of each sural nerve biopsy using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
| Sample_hyb_protocol | Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
| Sample_data_processing | The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA) normalized using the BrainArray Custom CDF HGU133Plus2_Hs_ENTREZG version 12. Cyber-T and ChipInspector (Genomatix, Germany) were used to analyze the expression data.
| Sample_platform_id | GPL10526
| Sample_contact_name | Junguk,,Hur
| Sample_contact_department | Neurology
| Sample_contact_institute | University of Michigan
| Sample_contact_address | 5380 BSRB 2200
| Sample_contact_city | Ann Arbor
| Sample_contact_state | MI
| Sample_contact_zip/postal_code | 48109
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM597nnn/GSM597485/suppl/GSM597485.CEL.gz
| Sample_series_id | GSE24290
| Sample_data_row_count | 17726
| |
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