Search results for the GEO ID: GSE26725  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM658010 | GPL570 |
|
Control PB C106
|
Control PB C106
|
disease state: Control
tissue: peripheral blood
|
|
| Sample_geo_accession | GSM658010
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658010/suppl/GSM658010_C106.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658011 | GPL570 |
|
Control PB C103
|
Control PB C103
|
disease state: Control
tissue: peripheral blood
|
|
| Sample_geo_accession | GSM658011
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658011/suppl/GSM658011_C103.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658012 | GPL570 |
|
Control PB C107
|
Control PB C107
|
disease state: Control
tissue: peripheral blood
|
|
| Sample_geo_accession | GSM658012
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658012/suppl/GSM658012_C107.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658013 | GPL570 |
|
Control PB C105
|
Control PB C105
|
disease state: Control
tissue: peripheral blood
|
|
| Sample_geo_accession | GSM658013
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658013/suppl/GSM658013_C105.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658014 | GPL570 |
|
Control PB C104
|
Control PB C104
|
disease state: Control
tissue: peripheral blood
|
|
| Sample_geo_accession | GSM658014
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658014/suppl/GSM658014_C104.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658015 | GPL570 |
|
B-CLL PB P155
|
B-CLL PB P155
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658015
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658015/suppl/GSM658015_P155.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658016 | GPL570 |
|
B-CLL PB P138
|
B-CLL PB P138
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658016
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658016/suppl/GSM658016_P138.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658017 | GPL570 |
|
B-CLL PB P86
|
B-CLL PB P86
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658017
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658017/suppl/GSM658017_P86.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658018 | GPL570 |
|
B-CLL PB P137
|
B-CLL PB P137
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658018
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658018/suppl/GSM658018_P137.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658019 | GPL570 |
|
B-CLL PB P143
|
B-CLL PB P143
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658019
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658019/suppl/GSM658019_P143.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658020 | GPL570 |
|
B-CLL PB P271
|
B-CLL PB P271
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658020
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658020/suppl/GSM658020_P271.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658021 | GPL570 |
|
B-CLL PB P136
|
B-CLL PB P136
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658021
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658021/suppl/GSM658021_P136.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658022 | GPL570 |
|
B-CLL PB P249
|
B-CLL PB P249
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658022
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658022/suppl/GSM658022_P249.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658023 | GPL570 |
|
B-CLL PB P254
|
B-CLL PB P254
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658023
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658023/suppl/GSM658023_P254.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658024 | GPL570 |
|
B-CLL PB P33
|
B-CLL PB P33
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658024
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658024/suppl/GSM658024_P33.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658025 | GPL570 |
|
B-CLL PB P250
|
B-CLL PB P250
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658025
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658025/suppl/GSM658025_P250.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
GSM658026 | GPL570 |
|
B-CLL PB P255
|
B-CLL PB P255
|
disease state: B-CLL
tissue: peripheral blood
|
Additional information and characteristics in the referred paper supplement xls table.
|
| Sample_geo_accession | GSM658026
| | Sample_status | Public on Mar 01 2011
| | Sample_submission_date | Jan 19 2011
| | Sample_last_update_date | Mar 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Peripheral blood from B-CLL patients as well as from healthy donors were firstly separated by Ficoll gradient (GE Healthcare), obtained peripheral mononuclear cells (PBMC). PBMC were shortly incubated in IMDM (Isove’s Modified Dulbecco’s) medium supplemented with 10% fetal calf serum, 1% non essential amino acids, 1% antibiotics. PBMCs from healthy donors were separated by autoMACS Pro Separator and anti FITC microbeads, CD19 human FITC antibody were used.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted by TRIzol Reagent following the manufacturer protocol. Precipitation by isopropyl alcohol (0.5mL per 1mL TRIzol) was done over night. As carrier of the aqueous phase the Acrylamide was used. The RNA pellets were washed with 75% ethanol (1mL per 1mL TRIzol) and dry pellets were resuspend in 20 uL of RNAse free water.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA were prepared using the recommended Affymetrix reagents and kits.
| | Sample_hyb_protocol | RNA was proceeded according to Affymetrix 3‘ – IVT Express Kit protocol. cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were processed using the Agilent GeneArray Scanner 3000 7G system in the Genomics Facility of the New York University Cancer Institute.
| | Sample_data_processing | Data were summarized using GeneSpring implementation of RMA algorithm and expression data were normalized on median of control samples.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Vojtěch,,Kulvait
| | Sample_contact_email | kulvait@atlas.cz
| | Sample_contact_phone | +420224965950
| | Sample_contact_fax | +420224912834
| | Sample_contact_laboratory | Centrum for experimental haematology
| | Sample_contact_department | Institute of Pathological Physiology
| | Sample_contact_institute | Charles University in Prague - 1st Faculty of Medicine
| | Sample_contact_address | U Nemocnice 5
| | Sample_contact_city | Prague 2
| | Sample_contact_zip/postal_code | 128 53
| | Sample_contact_country | Czech Republic
| | Sample_contact_web_link | http://dnasuite.com
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM658nnn/GSM658026/suppl/GSM658026_P255.CEL.gz
| | Sample_series_id | GSE26725
| | Sample_data_row_count | 54675
| | |
|
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