Search results for the GEO ID: GSE20391  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM510636 | GPL1261 |
|
sorted-R1 cells, repl 1
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R1
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510636
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510636/suppl/GSM510636.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510637 | GPL1261 |
|
sorted-R2 cells, repl 1
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R2
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510637
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510637/suppl/GSM510637.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510638 | GPL1261 |
|
sorted-R3 cells, repl 1
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R3
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510638
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510638/suppl/GSM510638.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510639 | GPL1261 |
|
sorted-R5 cells, repl 1
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R5
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510639
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510639/suppl/GSM510639.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510640 | GPL1261 |
|
sorted-R1 cells, repl 2
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R1
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510640
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510640/suppl/GSM510640.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510641 | GPL1261 |
|
sorted-R2 cells, repl 2
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R2
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510641
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510641/suppl/GSM510641.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510642 | GPL1261 |
|
sorted-R3 cells, repl 2
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R3
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510642
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510642/suppl/GSM510642.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510643 | GPL1261 |
|
sorted-R4 cells, repl 1
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R4
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510643
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510643/suppl/GSM510643.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510644 | GPL1261 |
|
sorted-R5 cells, repl 2
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R5
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510644
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510644/suppl/GSM510644.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510645 | GPL1261 |
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sorted-R2 cells, repl 3
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E14.5 C57/Bl6 fetal livers
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cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R2
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510645
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510645/suppl/GSM510645.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
| | |
|
GSM510646 | GPL1261 |
|
sorted-R3 cells, repl 3
|
E14.5 C57/Bl6 fetal livers
|
cell type: fetal liver cells
strain: C57/Bl6
developmental stage: e14.5
differentiation stage: R3
|
Expression profiling for each successive stage of erythroid development
|
| Sample_geo_accession | GSM510646
| | Sample_status | Public on Jun 16 2010
| | Sample_submission_date | Feb 17 2010
| | Sample_last_update_date | Jun 16 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Cells were sorted into Qiagen RNA easy extraction buffer directly and then frozen for extraction on a later date.
| | Sample_growth_protocol_ch1 | Freshly isolated fetal livers were stained with anti-Ter119 and CD71 antibodies and FACS-sorted for each successive stage of development (Zhang, et al. Blood. 2003 Dec 1; 102(12):3938-46).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Each set of replicates was extracted on the same date, using the Qiagen RNAeasy Micro Kit for smaller numbers of cells.
| | Sample_label_ch1 | Cy5
| | Sample_label_protocol_ch1 | Reverse-transcribed with Invitrogen Superscript II and then labeled with Cy5 using the Micromax ASAP labeling kit.
| | Sample_hyb_protocol | Labeled samples were hybed onto the Affymetrix GeneChip Mouse Genome 430 2.0 microarray (mouse 3' whole genome mouse microarray).
| | Sample_scan_protocol | Slides were scanned on the GeneChip scanner 3000 7G and then processed with the Affymetrix Gene Chip Operating System (GCOS) v 1.1.1
| | Sample_data_processing | Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method (trimmed mean set to 150), then the replicates were compared to each other using Limma linear-fit modeling using Bioconductor and R.
| | Sample_data_processing | Additional supplementary file (available on the Series record) contains Log2ratio of each stage against R2 (first erythroid-committed, erythroid-specific stage) or MAS 5.0 signal intensity are included (as labelled in matrix). P-values for significant differences between stage and control stage (R2) are included as well.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Shilpa,Manohar,Hattangadi
| | Sample_contact_email | hattangadi@wi.mit.edu
| | Sample_contact_laboratory | Lodish, Rm 605
| | Sample_contact_department | Lodish Lab
| | Sample_contact_institute | Whitehead Institute (WIBR)
| | Sample_contact_address | 9 Cambridge Center
| | Sample_contact_city | Cambridge
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02142
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM510nnn/GSM510646/suppl/GSM510646.CEL.gz
| | Sample_series_id | GSE20391
| | Sample_data_row_count | 45101
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