Search results for the GEO ID: GSE9452  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM239617 | GPL570 |
|
Colonic_mucosa_inflammation_26
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239617
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 25 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | Hybridization protocol The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239617/suppl/GSM239617.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239618 | GPL570 |
|
colonic_mucosa_inflammation_30
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239618
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 25 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239618/suppl/GSM239618.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239714 | GPL570 |
|
colonic_mucosa_inflamation_76
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239714
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239714/suppl/GSM239714.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239716 | GPL570 |
|
colonic_mucosa_inflamation_93
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239716
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239716/suppl/GSM239716.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239717 | GPL570 |
|
colonic_mucosa_inflamation_94
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239717
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239717/suppl/GSM239717.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239718 | GPL570 |
|
colonic_mucosa_inflamation_95
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239718
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239718/suppl/GSM239718.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239719 | GPL570 |
|
colonic_mucosa_inflamation_119
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239719
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239719/suppl/GSM239719.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239720 | GPL570 |
|
colonic_mucosa_inflamation_125
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, macroscopic inflammation vissible
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239720
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239720/suppl/GSM239720.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239723 | GPL570 |
|
colonoc_mucosa_non_inflamed_30
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239723
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239723/suppl/GSM239723.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239725 | GPL570 |
|
colonic_mucosa_non_inflamed_75
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239725
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239725/suppl/GSM239725.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239726 | GPL570 |
|
colonic_mucosa_non_inflamed_93
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239726
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239726/suppl/GSM239726.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239727 | GPL570 |
|
colonic_mucosa_non_inflamed_94
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239727
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239727/suppl/GSM239727.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239729 | GPL570 |
|
colonic_mucosa_non_inflamed_95
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239729
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239729/suppl/GSM239729.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239730 | GPL570 |
|
colonic_mucosa_non_inflamed_122
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239730
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239730/suppl/GSM239730.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239731 | GPL570 |
|
colonic_mucosa_non_inflamed_123
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239731
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239731/suppl/GSM239731.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM239732 | GPL570 |
|
colonic_mucosa_non_inflamed_125
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM239732
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239732/suppl/GSM239732.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240022 | GPL570 |
|
colonic_mucosa_non_inflamed_76
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the descending colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240022
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240022/suppl/GSM240022.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240023 | GPL570 |
|
colonic_mucosa_non_inflamed_721
|
Colonic mucosal endoscopic pinch biopsy
|
Control subject, biopsy taken from the colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240023
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240023/suppl/GSM240023.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240025 | GPL570 |
|
colonic_mucosa_non_inflamed_728
|
Colonic mucosal endoscopic pinch biopsy
|
Control subject, biopsy taken from the sigmoideum, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240025
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240025/suppl/GSM240025.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240026 | GPL570 |
|
colonic_mucosa_non_inflamed_741
|
Colonic mucosal endoscopic pinch biopsy
|
Control subject, biopsy taken from the colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240026
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240026/suppl/GSM240026.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240027 | GPL570 |
|
colonic_mucosa_non_inflamed_743
|
Colonic mucosal endoscopic pinch biopsy
|
Control subject, biopsy taken from the sigmoideum, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240027
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240027/suppl/GSM240027.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240028 | GPL570 |
|
colonic_mucosa_non_inflamed_744
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the colon, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240028
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240028/suppl/GSM240028.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240029 | GPL570 |
|
colonic_mucosa_non_inflamed_758
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the sigmoideum, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240029
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240029/suppl/GSM240029.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240030 | GPL570 |
|
colonic_mucosa_non_inflamed_877
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the sigmoideum, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240030
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240030/suppl/GSM240030.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
GSM240031 | GPL570 |
|
colonic_mucosa_non_inflamed_881
|
Colonic mucosal endoscopic pinch biopsy
|
Ulcerative colitis patient, biopsy taken from the sigmoideum, no macroscopic signs of inflammation.
|
The sample is a part of an analysis of colonic gene expression in patients with ulcerative colitis
|
| Sample_geo_accession | GSM240031
| | Sample_status | Public on Oct 31 2007
| | Sample_submission_date | Oct 29 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted with Trizol
| | Sample_label_ch1 | Phycoerythrin
| | Sample_label_protocol_ch1 | First strand cDNA was synthesized from 1 ug total RNA by incubation (42C, 1 hr) in a 20 ul reaction volume containing 2.5 mM T7-(dT)24 primer, 50 mM Tris-HCl pH 8.3, 75 mM KCL, 3 mM MgCl2, 10 mM DTT and 500 mM dNTP, 10 U/ml Superscript II reverse transcriptase (Invitrogen, Carlsbad, CA, USA).Second strand cDNA was synthesized directly by adding 91 ul RNase free water, 30 ul 5 times second strand reaction buffer (Invitrogen), 3 ul 10 mM dNTP, 1 ul Escherichia coli DNA ligase (10 U/ml), 4 ul E. coli DNA polymerase I (10 U/ml), 1 ul E. coli RNase H (2 U/ml) followed by incubation (2 hr, 16C). The ends of the double-stranded cDNA were polished using T4 DNA polymerase (20 U, 5 min, 16C). The cDNA was purified and concentrated by phenol/ chloroform extraction and ethanol precipitation.
| | Sample_hyb_protocol | The Affymetrix GeneChip® Hybridization, Wash, and Stain kit was used according to the protocol supplied with the kit.
| | Sample_scan_protocol | The Affymetrix system was used and the protocols supplied by Affymetrix followed.
| | Sample_data_processing | Log(2) transformed expression measures were calculated with the RMA procedure using the software from www.Bioconductor.org
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jorgen,,Olsen
| | Sample_contact_email | jolsen@imbg.ku.dk
| | Sample_contact_phone | +45 35327637
| | Sample_contact_department | Department of Medical Biochemistry & Genetics
| | Sample_contact_institute | University of Copenhagen
| | Sample_contact_address | Blegdamsvej 3
| | Sample_contact_city | Copenhagen
| | Sample_contact_zip/postal_code | DK2770
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM240nnn/GSM240031/suppl/GSM240031.CEL.gz
| | Sample_series_id | GSE9452
| | Sample_data_row_count | 54675
| | |
|
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