Search results for the GEO ID: GSE31255  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM774695 | GPL570 |
|
Human colonic mucosa-EPHB2 high replicate 1
|
EPHB2 high
|
tissue: Normal human mucosa
patient id: 1
ephb2 surface abundance: EPHB2 high
|
AMSep09--763-2009--89
Gene expression data from EPHB2-high sorted human mucosa cells
|
| Sample_geo_accession | GSM774695
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774695/suppl/GSM774695_AMSep09--763-2009--89.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774696 | GPL570 |
|
Human colonic mucosa-EPHB2 medium replicate 1
|
EPHB2 medium
|
tissue: Normal human mucosa
patient id: 1
ephb2 surface abundance: EPHB2 medium
|
AMSep09--764-2009--90
Gene expression data from EPHB2-medium sorted human mucosa cells
|
| Sample_geo_accession | GSM774696
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774696/suppl/GSM774696_AMSep09--764-2009--90.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774697 | GPL570 |
|
Human colonic mucosa-EPHB2 low replicate 1
|
EPHB2 low
|
tissue: Normal human mucosa
patient id: 1
ephb2 surface abundance: EPHB2 low
|
AMSep09--765-2009--91
Gene expression data from EPHB2-low sorted human mucosa cells
|
| Sample_geo_accession | GSM774697
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774697/suppl/GSM774697_AMSep09--765-2009--91.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774698 | GPL570 |
|
Human colonic mucosa-EPHB2 neg replicate 1
|
EPHB2 neg
|
tissue: Normal human mucosa
patient id: 1
ephb2 surface abundance: EPHB2 neg
|
AMSep09--766-2009--92
Gene expression data from EPHB2-negative sorted human mucosa cells
|
| Sample_geo_accession | GSM774698
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774698/suppl/GSM774698_AMSep09--766-2009--92.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774699 | GPL570 |
|
Human colonic mucosa-EPHB2 high replicate 2
|
EPHB2 high
|
tissue: Normal human mucosa
patient id: 2
ephb2 surface abundance: EPHB2 high
|
AMSep09--793-2009--93
Gene expression data from EPHB2-high sorted human mucosa cells
|
| Sample_geo_accession | GSM774699
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774699/suppl/GSM774699_AMSep09--793-2009--93.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774700 | GPL570 |
|
Human colonic mucosa-EPHB2 medium replicate 2
|
EPHB2 medium
|
tissue: Normal human mucosa
patient id: 2
ephb2 surface abundance: EPHB2 medium
|
AMSep09--794-2009--94
Gene expression data from EPHB2-medium sorted human mucosa cells
|
| Sample_geo_accession | GSM774700
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774700/suppl/GSM774700_AMSep09--794-2009--94.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774701 | GPL570 |
|
Human colonic mucosa-EPHB2 low replicate 2
|
EPHB2 low
|
tissue: Normal human mucosa
patient id: 2
ephb2 surface abundance: EPHB2 low
|
AMSep09--795-2009--95
Gene expression data from EPHB2-low sorted human mucosa cells
|
| Sample_geo_accession | GSM774701
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774701/suppl/GSM774701_AMSep09--795-2009--95.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774702 | GPL570 |
|
Human colonic mucosa-EPHB2 neg replicate 2
|
EPHB2 neg
|
tissue: Normal human mucosa
patient id: 2
ephb2 surface abundance: EPHB2 neg
|
AMSep09--796-2009--96
Gene expression data from EPHB2-negative sorted human mucosa cells
|
| Sample_geo_accession | GSM774702
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774702/suppl/GSM774702_AMSep09--796-2009--96.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774703 | GPL570 |
|
Human colonic mucosa-EPHB2 high replicate 3
|
EPHB2 high
|
tissue: Normal human mucosa
patient id: 3
ephb2 surface abundance: EPHB2 high
|
AMSep09--801-2009--105
Gene expression data from EPHB2-high sorted human mucosa cells
|
| Sample_geo_accession | GSM774703
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774703/suppl/GSM774703_AMSep09--801-2009--105.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774704 | GPL570 |
|
Human colonic mucosa-EPHB2 medium replicate 3
|
EPHB2 medium
|
tissue: Normal human mucosa
patient id: 3
ephb2 surface abundance: EPHB2 medium
|
AMSep09--802-2009--106
Gene expression data from EPHB2-medium sorted human mucosa cells
|
| Sample_geo_accession | GSM774704
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774704/suppl/GSM774704_AMSep09--802-2009--106.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
| | |
|
GSM774705 | GPL570 |
|
Human colonic mucosa-EPHB2 low replicate 3
|
EPHB2 low
|
tissue: Normal human mucosa
patient id: 3
ephb2 surface abundance: EPHB2 low
|
AMSep09--803-2009--107
Gene expression data from EPHB2-low sorted human mucosa cells
|
| Sample_geo_accession | GSM774705
| | Sample_status | Public on Nov 22 2011
| | Sample_submission_date | Aug 08 2011
| | Sample_last_update_date | Nov 23 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium, low, or negative EPHB2 levels (anti-EphB2 Mab 2H9 -Genentech, coupled to APC fluorophor, 2 ug/ml)
| | Sample_growth_protocol_ch1 | Intestinal epithelial single cell suspensions were obtained from human colonic mucosa after shaking in PBS containing 8mM EDTA followed by enzyme treatment with 0.2mg/mL Dispase, 0.8U/µL DNAse I.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA from sorted cells was extracted using Trizol Reagent and purified using the Qiagen RNeasy MiniKit using the manufacturer's protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.)
| | Sample_hyb_protocol | 3.75 µg of cDNA was hybridized per Affymetrix GeneChip Human Genome U133 Plus 2.0 Array for 16 hours of hybridization at 45C, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA) according to the manufacturer’s instructions (http://www.affymetrix.com).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip@ Scanner 3000.
| | Sample_data_processing | RMA background correction, quantile normalization and RMA summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eduard,,Batlle
| | Sample_contact_email | eduard.batlle@irbbarcelona.org
| | Sample_contact_phone | 0034 934039008
| | Sample_contact_fax | 0034 934039008
| | Sample_contact_laboratory | Colorectal Cancer Laboratory
| | Sample_contact_department | Oncology
| | Sample_contact_institute | Institute for Research in Biomedicine Barcelona
| | Sample_contact_address | Baldiri i Reixac 10
| | Sample_contact_city | Barcelona
| | Sample_contact_state | Barcelona
| | Sample_contact_zip/postal_code | 08028
| | Sample_contact_country | Spain
| | Sample_contact_web_link | www.irbbarcelona.org
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM774nnn/GSM774705/suppl/GSM774705_AMSep09--803-2009--107.CEL.gz
| | Sample_series_id | GSE31255
| | Sample_series_id | GSE31257
| | Sample_data_row_count | 54675
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