Search results for the GEO ID: GSE7235 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM174485 | GPL339 |
|
FLA2-1, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: male
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S386
SCGP Sample ID link: see StemBase website for SAMPLE_380
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 1.4 (71.43%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174485
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174485/suppl/GSM174485.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174485/suppl/GSM174485.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174485/suppl/GSM174485.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174486 | GPL339 |
|
FLA2-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: male
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S386
SCGP Sample ID link: see StemBase website for SAMPLE_380
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 1.4 (71.43%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174486
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174486/suppl/GSM174486.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174486/suppl/GSM174486.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174486/suppl/GSM174486.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174487 | GPL339 |
|
FLA2-3, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: male
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S386
SCGP Sample ID link: see StemBase website for SAMPLE_380
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 1.4 (71.43%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174487
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174487/suppl/GSM174487.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174487/suppl/GSM174487.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174487/suppl/GSM174487.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174488 | GPL339 |
|
FLB1-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S387
SCGP Sample ID link: see StemBase website for SAMPLE_381
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 347 (0.29%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174488
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174488/suppl/GSM174488.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174488/suppl/GSM174488.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174488/suppl/GSM174488.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174489 | GPL339 |
|
FLB1-3, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S387
SCGP Sample ID link: see StemBase website for SAMPLE_381
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 347 (0.29%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174489
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174489/suppl/GSM174489.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174489/suppl/GSM174489.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174489/suppl/GSM174489.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174490 | GPL339 |
|
FLB2-1, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: male
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S388
SCGP Sample ID link: see StemBase website for SAMPLE_382
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 72 (1.39%).,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174490
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174490/suppl/GSM174490.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174490/suppl/GSM174490.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174490/suppl/GSM174490.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174491 | GPL339 |
|
FLB2-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: male
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S388
SCGP Sample ID link: see StemBase website for SAMPLE_382
Short description: Fetal liver cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 72 (1.39%).,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174491
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174491/suppl/GSM174491.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174491/suppl/GSM174491.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174491/suppl/GSM174491.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174492 | GPL339 |
|
BMA1-1, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S389
SCGP Sample ID link: see StemBase website for SAMPLE_383
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was unknown.,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174492
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174492/suppl/GSM174492.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174492/suppl/GSM174492.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174492/suppl/GSM174492.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174493 | GPL339 |
|
BMA1-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S389
SCGP Sample ID link: see StemBase website for SAMPLE_383
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was unknown.,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174493
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Feb 11 2008
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174493/suppl/GSM174493.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174493/suppl/GSM174493.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174493/suppl/GSM174493.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174494 | GPL339 |
|
BMA1-3, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S389
SCGP Sample ID link: see StemBase website for SAMPLE_383
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was unknown.,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174494
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174494/suppl/GSM174494.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174494/suppl/GSM174494.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174494/suppl/GSM174494.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174495 | GPL339 |
|
BMA3-1, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S390
SCGP Sample ID link: see StemBase website for SAMPLE_384
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 129 (0.78%).,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174495
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174495/suppl/GSM174495.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174495/suppl/GSM174495.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174495/suppl/GSM174495.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174496 | GPL339 |
|
BMA3-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S390
SCGP Sample ID link: see StemBase website for SAMPLE_384
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 129 (0.78%).,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174496
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174496/suppl/GSM174496.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174496/suppl/GSM174496.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174496/suppl/GSM174496.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174497 | GPL339 |
|
BMA3-3, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S390
SCGP Sample ID link: see StemBase website for SAMPLE_384
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 129 (0.78%).,
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174497
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174497/suppl/GSM174497.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174497/suppl/GSM174497.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174497/suppl/GSM174497.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174498 | GPL339 |
|
BMA5-1, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S391
SCGP Sample ID link: see StemBase website for SAMPLE_385
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 183 (0.55%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174498
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174498/suppl/GSM174498.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174498/suppl/GSM174498.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174498/suppl/GSM174498.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174499 | GPL339 |
|
BMA5-2, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S391
SCGP Sample ID link: see StemBase website for SAMPLE_385
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 183 (0.55%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174499
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174499/suppl/GSM174499.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174499/suppl/GSM174499.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174499/suppl/GSM174499.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
| |
|
GSM174500 | GPL339 |
|
BMA5-3, chip MOE430A
|
Total bone marrow cells, Bone Marrow
|
Strain: C57bl/6 wild type
Gender: female
|
This sample was analyzed as part of the Stem Cell Genomics Project. The biological material was submitted to the Ontario Genomics Innovation Centre by Amelie Faubert (amelie.faubert@umontreal.ca; ) for analysis.
Stembase Experiment ID: E242
Stembase Experiment ID link: see StemBase website
SCGP Sample ID: S391
SCGP Sample ID link: see StemBase website for SAMPLE_385
Short description: Bone marrow cells were sorted and infected with Hoxa9+Meis retroviral particles, which provided fully leukemic complement to hematopoietic cells. These cells were injected into mice and leukemia onset was monitored in vivo. Leukemic stem cell (L-HSC) frequencies of these primary leukemias were evaluated using limiting dilution stem cell transfer in secondary recipients. , For this sample, number of Leukemic-HSC (L-HSC) per total Leukemic-Bone marrow cells (L-HSC frequency) was 1 in 183 (0.55%),
Estimated purity: 95
RNA concentration: 0.05 ug/ul
|
Sample_geo_accession | GSM174500
| Sample_status | Public on Jun 04 2012
| Sample_submission_date | Mar 09 2007
| Sample_last_update_date | Jun 04 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA prep method: RNeasy
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
| Sample_data_processing | Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
| Sample_platform_id | GPL339
| Sample_contact_name | Carol,,Perez-Iratxeta
| Sample_contact_email | cpereziratxeta@gmail.com
| Sample_contact_phone | (613) 737-8899 -73255
| Sample_contact_fax | (613) 737-8023
| Sample_contact_laboratory | Cellular and Molecular Medicine, Bioinformatics
| Sample_contact_department | Ottawa Health Research Institute
| Sample_contact_institute | Ontario Genomics Innovation Centre (OGIC)
| Sample_contact_address | 501 Smyth Rd.
| Sample_contact_city | Ottawa
| Sample_contact_state | ON
| Sample_contact_zip/postal_code | K1H 8L6
| Sample_contact_country | Canada
| Sample_contact_web_link | http://www.ohri.ca
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174500/suppl/GSM174500.cel.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174500/suppl/GSM174500.chp.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM174nnn/GSM174500/suppl/GSM174500.exp.gz
| Sample_series_id | GSE7235
| Sample_data_row_count | 22690
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Make groups for comparisons |
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Select GSMs and click on "Add groups" |
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