Result

Search results for the GEO ID: GSE27605

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM684317

GPL1261

intestine-Lgr5High-R1

Lgr5 High

cell type: intestinal crypt cells strain: C57BL/6 group: Lgr5 High hybridization_date: April_2010

Gene expression data from intestinal Lgr5-EGFP high sorted cells

Sample_geo_accession	GSM684317
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684317/suppl/GSM684317.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684318

GPL1261

intestine-Lgr5Low-R1

Lgr5 Low

cell type: intestinal crypt cells strain: C57BL/6 group: Lgr5 Low hybridization_date: April_2010

Gene expression data from intestinal Lgr5-EGFP low sorted cells

Sample_geo_accession	GSM684318
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684318/suppl/GSM684318.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684319

GPL1261

intestine-EphB2High-R1

EphB2 High Rep1

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 High hybridization_date: Feb_2009

Gene expression data from intestinal EphB2 High sorted cells

Sample_geo_accession	GSM684319
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684319/suppl/GSM684319.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684320

GPL1261

intestine-EphB2Medium-R1

EphB2 Medium Rep1

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 Medium hybridization_date: Feb_2009

Gene expression data from intestinal EphB2 Medium sorted cells

Sample_geo_accession	GSM684320
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684320/suppl/GSM684320.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684321

GPL1261

intestine-EphB2Low-R1

EphB2 Low Rep1

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 Low hybridization_date: Feb_2009

Gene expression data from intestinal EphB2 Low sorted cells

Sample_geo_accession	GSM684321
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684321/suppl/GSM684321.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684322

GPL1261

intestine-EphB2High-R2

EphB2 High Rep2

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 High hybridization_date: March_2009

Gene expression data from intestinal EphB2 High sorted cells

Sample_geo_accession	GSM684322
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684322/suppl/GSM684322.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684323

GPL1261

intestine-EphB2Medium-R2

EphB2 Medium Rep2

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 Medium hybridization_date: March_2009

Gene expression data from intestinal EphB2 Medium sorted cells

Sample_geo_accession	GSM684323
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684323/suppl/GSM684323.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

GSM684324

GPL1261

intestine-EphB2Low-R2

EphB2 Low Rep2

cell type: intestinal crypt cells strain: C57BL/6 group: EphB2 Low hybridization_date: March_2009

Gene expression data from intestinal EphB2 Low sorted cells

Sample_geo_accession	GSM684324
Sample_status	Public on Mar 14 2011
Sample_submission_date	Mar 01 2011
Sample_last_update_date	Mar 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Intestinal single cell suspensions were sorted in a FACS Aria 2.0 (BD) according to high, medium or low EphB2 levels (anti-EphB2 Mab 2H9 -Genentech, 6g/ml detected by secondary anti-mouse IgG-APC -1/500, Jackson) or Lgr5 levels (High or Low expression of the Lgr5-EGFP knock-in allele
Sample_growth_protocol_ch1	Intestinal epithelial single cell suspensions were obtained from mouse intestines after several rounds of shaking in HBSS containing 8mM EDTA followed by enzyme treatment with 0.4mg/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 following manufacturer’s instructions.
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® Mouse 430 2.0 Array for 16 hours of hybridization at 45ºC, 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	according to the manufacturer’s instructions (http://www.affymetrix.com)
Sample_data_processing	Lgr5 samples (samples 1 and 2) and EphB2 samples (samples 3 to 8) were obtained at different dates and pre-processed separately. In both cases quantile normalization and RMA summarization were used. Genespring software was used for samples 1 and 2. Bioconductor software was used for samples 3 to 8. (Bioc version: 2.8.0; Bioc packages: affy, mouse4302cdf)
Sample_platform_id	GPL1261
Sample_contact_name	Eduard,,Batlle
Sample_contact_email	eduard.batlle@irbbarcelona.org
Sample_contact_phone	+34 934039008
Sample_contact_institute	Institute for Research in Biomedicine
Sample_contact_address	Baldiri i Reixach 10
Sample_contact_city	Barcelona
Sample_contact_zip/postal_code	08032
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM684nnn/GSM684324/suppl/GSM684324.CEL.gz
Sample_series_id	GSE27605
Sample_data_row_count	45101

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