Search results for the GEO ID: GSE6731  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM155564 | GPL8300 |
|
N65s2
|
colonoscopic biopsy from normal adult
|
normal sigmoid colon of adult
|
Colonic biopsy was collected during endoscopy from normal control individual. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155564
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155564/suppl/GSM155564.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155564/suppl/GSM155564.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155565 | GPL8300 |
|
N66s1
|
colonoscopic biopsy from normal adult
|
normal sigmoid colon of adult
|
Colonic biopsy was collected during endoscopy from normal control individual. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155565
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155565/suppl/GSM155565.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155565/suppl/GSM155565.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155566 | GPL8300 |
|
N69s
|
colonoscopic biopsy from normal adult
|
normal sigmoid colon of adult
|
Colonic biopsy was collected during endoscopy from normal control individual. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155566
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155566/suppl/GSM155566.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155566/suppl/GSM155566.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155567 | GPL8300 |
|
N79s
|
colonoscopic biopsy from normal adult
|
normal sigmoid colon of adult
|
Colonic biopsy was collected during endoscopy from normal control individual. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155567
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155567/suppl/GSM155567.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155567/suppl/GSM155567.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155568 | GPL8300 |
|
CD-33-Aff
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155568
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155568/suppl/GSM155568.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155568/suppl/GSM155568.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155569 | GPL8300 |
|
CD-49-Aff1
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155569
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155569/suppl/GSM155569.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155569/suppl/GSM155569.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155570 | GPL8300 |
|
CD-51-Aff
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155570
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155570/suppl/GSM155570.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155570/suppl/GSM155570.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155571 | GPL8300 |
|
CD-53-Aff
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155571
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155571/suppl/GSM155571.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155571/suppl/GSM155571.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155572 | GPL8300 |
|
CD-58-Aff
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155572
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155572/suppl/GSM155572.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155572/suppl/GSM155572.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155573 | GPL8300 |
|
CD-76-Aff1
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD). Replicate-1
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155573
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155573/suppl/GSM155573.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155573/suppl/GSM155573.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155574 | GPL8300 |
|
CD-76-Aff2
|
colonoscopic biopsy from adult with affected colon with Crohn's disease
|
disease affected colon of an adult with Crohn's disease (CD). Replicate-2
|
Colonic biopsy was collected during endoscopy from affected area of a patient with Crohn's disease. The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155574
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155574/suppl/GSM155574.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155574/suppl/GSM155574.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155575 | GPL8300 |
|
CD-33-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155575
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155575/suppl/GSM155575.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155575/suppl/GSM155575.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155576 | GPL8300 |
|
CD-45-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155576
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155576/suppl/GSM155576.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155576/suppl/GSM155576.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155577 | GPL8300 |
|
CD-45-un2
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155577
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155577/suppl/GSM155577.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155577/suppl/GSM155577.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155578 | GPL8300 |
|
CD-48-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155578
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155578/suppl/GSM155578.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155578/suppl/GSM155578.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155579 | GPL8300 |
|
CD-48-un2
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155579
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155579/suppl/GSM155579.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155579/suppl/GSM155579.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155580 | GPL8300 |
|
CD-49-un1
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155580
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155580/suppl/GSM155580.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155580/suppl/GSM155580.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155581 | GPL8300 |
|
CD-51-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155581
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155581/suppl/GSM155581.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155581/suppl/GSM155581.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155582 | GPL8300 |
|
CD-53-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155582
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155582/suppl/GSM155582.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155582/suppl/GSM155582.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155583 | GPL8300 |
|
CD-58-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155583
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155583/suppl/GSM155583.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155583/suppl/GSM155583.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155584 | GPL8300 |
|
CD-59-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155584
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155584/suppl/GSM155584.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155584/suppl/GSM155584.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155585 | GPL8300 |
|
CD-59-un2
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155585
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155585/suppl/GSM155585.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155585/suppl/GSM155585.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155586 | GPL8300 |
|
CD-76-un
|
colonoscopic biopsy from adult with unaffected colon with Crohn's disease
|
disease unaffected colon of a adult with Crohn's disease (CD)
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with Crohn's disease (CD). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155586
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155586/suppl/GSM155586.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155586/suppl/GSM155586.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155587 | GPL8300 |
|
UC-32-Aff
|
colonoscopic biopsy from adult with affected colon from adult with UC
|
disease affected colon of an adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155587
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155587/suppl/GSM155587.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155587/suppl/GSM155587.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155588 | GPL8300 |
|
UC-35-Aff
|
colonoscopic biopsy from adult with affected colon from adult with UC
|
disease affected colon of an adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155588
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155588/suppl/GSM155588.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155588/suppl/GSM155588.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155589 | GPL8300 |
|
UC-38-Aff
|
colonoscopic biopsy from adult with affected colon from adult with UC
|
disease affected colon of an adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155589
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155589/suppl/GSM155589.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155589/suppl/GSM155589.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155590 | GPL8300 |
|
UC-55-Aff
|
colonoscopic biopsy from adult with affected colon from adult with UC
|
disease affected colon of an adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155590
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155590/suppl/GSM155590.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155590/suppl/GSM155590.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155591 | GPL8300 |
|
UC-71-Aff
|
colonoscopic biopsy from adult with affected colon from adult with UC
|
disease affected colon of an adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155591
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155591/suppl/GSM155591.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155591/suppl/GSM155591.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155592 | GPL8300 |
|
UC-32-un
|
colonoscopic biopsy from adult with unaffected colon from adult with UC
|
disease unaffected colon of a adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155592
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155592/suppl/GSM155592.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155592/suppl/GSM155592.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155593 | GPL8300 |
|
UC-33-un
|
colonoscopic biopsy from adult with unaffected colon from adult with UC
|
disease unaffected colon of a adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155593
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155593/suppl/GSM155593.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155593/suppl/GSM155593.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155594 | GPL8300 |
|
UC-38-un
|
colonoscopic biopsy from adult with unaffected colon from adult with UC
|
disease unaffected colon of a adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155594
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155594/suppl/GSM155594.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155594/suppl/GSM155594.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155595 | GPL8300 |
|
UC-55-un
|
colonoscopic biopsy from adult with unaffected colon from adult with UC
|
disease unaffected colon of a adult with ulcerative colitis (UC).
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with ulcerative colitis (UC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155595
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155595/suppl/GSM155595.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155595/suppl/GSM155595.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155596 | GPL8300 |
|
INF-156
|
colonoscopic biopsy from adult with affected colon from adult with INF
|
disease affected colon of an adult with bacterial infectious colitis (INF).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with bacterial infectious colitis (INF). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155596
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155596/suppl/GSM155596.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155596/suppl/GSM155596.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155597 | GPL8300 |
|
INF-157
|
colonoscopic biopsy from adult with affected colon from adult with INF
|
disease affected colon of an adult with bacterial infectious colitis (INF).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with bacterial infectious colitis (INF). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155597
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155597/suppl/GSM155597.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155597/suppl/GSM155597.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155598 | GPL8300 |
|
IC-44-Aff
|
colonoscopic biopsy from adult with affected colon from adult with IC
|
disease affected colon of an adult with indeterminate colitis (IC).
|
Colonic biopsy was collected during endoscopy from affected area of a patient with indeterminate colitis (IC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155598
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155598/suppl/GSM155598.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155598/suppl/GSM155598.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
GSM155599 | GPL8300 |
|
IC-44-un
|
colonoscopic biopsy from adult with unaffected colon from adult with IC
|
disease unaffected colon of an adult with indeterminate colitis (IC).
|
Colonic biopsy was collected during endoscopy from unaffected area of a patient with indeterminate colitis (IC). The standard Affymetrix protocols were followed to prepare target from 5ug of total RNA. The expression profiles generated from normal individuals were compared to that from patients with different types of disease.
|
| Sample_geo_accession | GSM155599
| | Sample_status | Public on Mar 01 2007
| | Sample_submission_date | Jan 16 2007
| | Sample_last_update_date | Mar 16 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Fresh biopsy was placed on ice in the Trizol solution (Invitrogen).
| | Sample_growth_protocol_ch1 | none
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip U95Av2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner (Affymetrix).
| | Sample_data_processing | The DNA-Chip Analyzer (dChip) software (Li, C. and Wong, W.H. 2001) was used to normalize the image data and calculate the expression value.
| | Sample_platform_id | GPL8300
| | Sample_contact_name | Shukti,,Chakravarti
| | Sample_contact_email | schakrav@jhmi.edu
| | Sample_contact_phone | 410-502-7627
| | Sample_contact_fax | 410-614-4834
| | Sample_contact_laboratory | 935 Ross Bldg/ GI division
| | Sample_contact_department | Medicine
| | Sample_contact_institute | Johns Hopkins University School of Medicine
| | Sample_contact_address | 720 Rutland Ave
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21205
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155599/suppl/GSM155599.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM155nnn/GSM155599/suppl/GSM155599.EXP.gz
| | Sample_series_id | GSE6731
| | Sample_data_row_count | 12625
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
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