Search results for the GEO ID: GSE21549  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM538506 | GPL1261 |
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vil-Cre-Bcl9-/-/Bcl9l-/- healthy colon epithelium 1
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EDTA_dissociated healthy colon epithelial tissue
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strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: vil-Cre-Bcl9-/-/Bcl9l-/-
sample id: KO_P1_1_3
age: 12-week old
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| Sample_geo_accession | GSM538506
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538506/suppl/GSM538506.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
| | |
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GSM538507 | GPL1261 |
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vil-Cre-Bcl9-/-/Bcl9l-/- healthy colon epithelium 2
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EDTA_dissociated healthy colon epithelial tissue
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strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: vil-Cre-Bcl9-/-/Bcl9l-/-
sample id: KO_P2_2_2
age: 12-week old
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| Sample_geo_accession | GSM538507
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538507/suppl/GSM538507.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
| | |
|
GSM538508 | GPL1261 |
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vil-Cre-Bcl9-/-/Bcl9l-/- healthy colon epithelium 3
|
EDTA_dissociated healthy colon epithelial tissue
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strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: vil-Cre-Bcl9-/-/Bcl9l-/-
sample id: KO_P3_3_2
age: 12-week old
|
|
| Sample_geo_accession | GSM538508
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538508/suppl/GSM538508.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
| | |
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GSM538509 | GPL1261 |
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wildtype healthy colon epithelium 4
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EDTA_dissociated healthy colon epithelial tissue
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strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: wildtype
sample id: WT_P4_7_3
age: 12-week old
|
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| Sample_geo_accession | GSM538509
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538509/suppl/GSM538509.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
| | |
|
GSM538510 | GPL1261 |
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wildtype healthy colon epithelium 5
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EDTA_dissociated healthy colon epithelial tissue
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strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: wildtype
sample id: WT_P5_8_3
age: 12-week old
|
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| Sample_geo_accession | GSM538510
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538510/suppl/GSM538510.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
| | |
|
GSM538511 | GPL1261 |
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wildtype healthy colon epithelium 6
|
EDTA_dissociated healthy colon epithelial tissue
|
strain: 129SvEv/C57BL/6/DBA/2 mixed background
genotype: wildtype
sample id: WT_P6_9_3
age: 12-week old
|
|
| Sample_geo_accession | GSM538511
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | May 04 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | The intestine was cut open longitudinally, washed well in PBS and incubated in 3mM EDTA, 0.05mM DTT in PBS for 1.5 to 2 hours at RT. The tubes were shaked vigorously for ca. 30sec, such that the epithelium came off the muscle (solution became cloudy). The muscle was removed and the tube centrifuged at high speed for 1 min to pellet the epithelial cells. The supernatant was removed and the pellet frozen.
| | Sample_growth_protocol_ch1 | 12- Week-old mice were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples from two or three mice were pooled and total RNA extracted in 20µL using the PicoPure RNA Isolation Kit (MDS Analytical Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 30 ng of total RNA were amplified using the NuGEN WT-Ovation pico kit (NuGEN Inc., San Carlos, USA).
| | Sample_hyb_protocol | cDNA was hybridized to Affymetrix Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix M10 version 1.0, Software version 4.0.0.16
| | Sample_data_processing | Robust multi-array averaging and quantile normalization were used to quantify gene expression (R, Bioconductor, RMA package).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Michel,,Aguet
| | Sample_contact_email | michel.aguet@epfl.ch
| | Sample_contact_phone | +41 21 314 7150
| | Sample_contact_laboratory | Aguet Lab
| | Sample_contact_department | Life Sciences
| | Sample_contact_institute | EPFL/ISREC
| | Sample_contact_address | Rue du Bugnon 25
| | Sample_contact_city | Lausanne
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538511/suppl/GSM538511.CEL.gz
| | Sample_series_id | GSE21549
| | Sample_series_id | GSE21603
| | Sample_data_row_count | 45101
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