Search results for the GEO ID: GSE38557  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM945546 | GPL1261 |
|
Hematopoietic stem cell, biological replicate 1
|
Hematopoietic stem cells purified from primary bone marrow
|
strain: C57BL/6
cell type: hematopoietic stem cells
tissue lineage: blood
|
HSC_1
Cell purification by FACS as follows: Lineage (CD4, CD8, CD3, B220, Ter119, Mac1, Gr1, Il7ra) negative, Sca1+, ckit+, CD34-, flk2-, PI-.
|
| Sample_geo_accession | GSM945546
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945546/suppl/GSM945546_HSC_1.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945547 | GPL1261 |
|
Hematopoietic stem cell, biological replicate 2
|
Hematopoietic stem cells purified from primary bone marrow
|
strain: C57BL/6
cell type: hematopoietic stem cells
tissue lineage: blood
|
HSC_2
Cell purification by FACS as follows: Lineage (CD4, CD8, CD3, B220, Ter119, Mac1, Gr1, Il7ra) negative, Sca1+, ckit+, CD34-, flk2-, PI-.
|
| Sample_geo_accession | GSM945547
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945547/suppl/GSM945547_HSC_2.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945548 | GPL1261 |
|
Megakaryocyte-erythroid progenitor, biological replicate 1
|
Megakaryocyte-erythroid progenitor cells purified from primary bone marrow
|
strain: C57BL/6
cell type: megakaryocyte-erythroid progenitor cells
tissue lineage: blood
|
MEP_1
Cell purification by FACS as follows: Lineage (CD4, CD8, CD3, B220, Ter119, Mac1, Gr1 Il7ra) negative, Sca1-, ckit+, fcgamma receptor low/neg, CD34-, PI-.
|
| Sample_geo_accession | GSM945548
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945548/suppl/GSM945548_MEP_1.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945549 | GPL1261 |
|
Megakaryocyte-erythroid progenitor, biological replicate 2
|
Megakaryocyte-erythroid progenitor cells purified from primary bone marrow
|
strain: C57BL/6
cell type: megakaryocyte-erythroid progenitor cells
tissue lineage: blood
|
MEP_2
Cell purification by FACS as follows: Lineage (CD4, CD8, CD3, B220, Ter119, Mac1, Gr1 Il7ra) negative, Sca1-, ckit+, fcgamma receptor low/neg, CD34-, PI-.
|
| Sample_geo_accession | GSM945549
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945549/suppl/GSM945549_MEP_2.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945550 | GPL1261 |
|
Companion layer differentiated cell, biological replicate 1
|
Companion layer differentiated cells purified from primary skin tissue
|
strain: CD-1
cell type: companion layer differentiated cells
tissue lineage: skin
|
CLDC_1
Cell purification by FACS as follows: Lhx2-GFP negative, K6-RFP positive, beta 1 integrin negative, CD34 negative.
|
| Sample_geo_accession | GSM945550
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945550/suppl/GSM945550_CLDC_1.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945551 | GPL1261 |
|
Companion layer differentiated cell, biological replicate 2
|
Companion layer differentiated cells purified from primary skin tissue
|
strain: CD-1
cell type: companion layer differentiated cells
tissue lineage: skin
|
CLDC_2
Cell purification by FACS as follows: Lhx2-GFP negative, K6-RFP positive, beta 1 integrin negative, CD34 negative.
|
| Sample_geo_accession | GSM945551
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945551/suppl/GSM945551_CLDC_2.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945552 | GPL1261 |
|
Epidermis progenitor cell, biological replicate 1
|
Epidermis progenitor cells purified from primary skin tissue
|
strain: CD-1
cell type: epidermis progenitor cells
tissue lineage: skin
|
EPro_1
Cell purification by FACS as follows: K14-GFP positive, K10-RFP negative, alpha 6 integrin high, Sca1 positive.
|
| Sample_geo_accession | GSM945552
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945552/suppl/GSM945552_EPro_1.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945553 | GPL1261 |
|
Epidermis progenitor cell, biological replicate 2
|
Epidermis progenitor cells purified from primary skin tissue
|
strain: CD-1
cell type: epidermis progenitor cells
tissue lineage: skin
|
EPro_2
Cell purification by FACS as follows: K14-GFP positive, K10-RFP negative, alpha 6 integrin high, Sca1 positive.
|
| Sample_geo_accession | GSM945553
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945553/suppl/GSM945553_EPro_2.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945554 | GPL1261 |
|
Epidermis differentiated cell, biological replicate 1
|
Epidermis differentiated cells purified from primary skin tissue
|
strain: CD-1
cell type: epidermis differentiated cells
tissue lineage: skin
|
EDif_1
Cell purification by FACS as follows: K14-GFP negative, K10-RFP positive, alpha 6 integrin low, Sca1 low.
|
| Sample_geo_accession | GSM945554
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945554/suppl/GSM945554_EDif_1.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
| | |
|
GSM945555 | GPL1261 |
|
Epidermis differentiated cell, biological replicate 2
|
Epidermis differentiated cells purified from primary skin tissue
|
strain: CD-1
cell type: epidermis differentiated cells
tissue lineage: skin
|
EDif_2
Cell purification by FACS as follows: K14-GFP negative, K10-RFP positive, alpha 6 integrin low, Sca1 low.
|
| Sample_geo_accession | GSM945555
| | Sample_status | Public on Jul 15 2012
| | Sample_submission_date | Jun 07 2012
| | Sample_last_update_date | Jul 15 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted on a BD Biosciences FACSAria II cell sorter according to the listed cell type specific criteria.
| | Sample_growth_protocol_ch1 | Cells were purified directly from primary bone marrow (HSC, MEP) or primary skin tissue (CLDC, EPro, EDif) without any phase of in vitro culture.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the RNeasy kit (Qiagen) according to the manufacturer's recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul, and the GeneChip 3' IVT Express Protocol was used for amplification in a semi-automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.8 with default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM945nnn/GSM945555/suppl/GSM945555_EDif_2.cel.gz
| | Sample_series_id | GSE38557
| | Sample_data_row_count | 45101
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