Search results for the GEO ID: GSE30442  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM755001 | GPL570 |
|
MLL_00107
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755001
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755001/suppl/GSM755001.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755002 | GPL570 |
|
MLL_00110
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755002
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755002/suppl/GSM755002.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755003 | GPL570 |
|
MLL_00111
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755003
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755003/suppl/GSM755003.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755004 | GPL570 |
|
MLL_00112
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755004
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755004/suppl/GSM755004.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755005 | GPL570 |
|
MLL_00113
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755005
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755005/suppl/GSM755005.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755006 | GPL570 |
|
MLL_00114
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755006
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755006/suppl/GSM755006.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755007 | GPL570 |
|
MLL_00115
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755007
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755007/suppl/GSM755007.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755008 | GPL570 |
|
MLL_00116
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755008
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755008/suppl/GSM755008.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755009 | GPL570 |
|
MLL_00117
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755009
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755009/suppl/GSM755009.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755010 | GPL570 |
|
MLL_00118
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755010
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755010/suppl/GSM755010.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755011 | GPL570 |
|
MLL_00119
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755011
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755011/suppl/GSM755011.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755012 | GPL570 |
|
MLL_00120
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755012
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755012/suppl/GSM755012.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755013 | GPL570 |
|
MLL_00122
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755013
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755013/suppl/GSM755013.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755014 | GPL570 |
|
MLL_00123
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755014
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755014/suppl/GSM755014.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755015 | GPL570 |
|
MLL_00124
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755015
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755015/suppl/GSM755015.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755016 | GPL570 |
|
MLL_00125
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755016
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755016/suppl/GSM755016.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755017 | GPL570 |
|
MLL_00126
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755017
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755017/suppl/GSM755017.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755018 | GPL570 |
|
MLL_00127
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755018
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755018/suppl/GSM755018.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755019 | GPL570 |
|
MLL_00128
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755019
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755019/suppl/GSM755019.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755020 | GPL570 |
|
MLL_00129
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755020
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755020/suppl/GSM755020.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755021 | GPL570 |
|
MLL_00131
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755021
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755021/suppl/GSM755021.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755022 | GPL570 |
|
MLL_00133
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755022
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755022/suppl/GSM755022.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755023 | GPL570 |
|
MLL_00134
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: BCOR mutation
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755023
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755023/suppl/GSM755023.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
GSM755024 | GPL570 |
|
MLL_00135
|
mononuclear cells after Ficoll purification
|
disease: AML
bcor mutation: wild-type
karyotype: normal karyotype
|
AML with normal karyotype, molecular analyses performed for BCOR mutations
|
| Sample_geo_accession | GSM755024
| | Sample_status | Public on Dec 16 2011
| | Sample_submission_date | Jul 06 2011
| | Sample_last_update_date | Dec 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated samples
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA was purified with Qiagen RNeasy Mini kits (Qiagen, Hilden, Germany) according to the manufacturer's recommendations.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using a cDNA Synthesis System kit including an oligo(dT)24 – T7 primer (Roche Applied Science, Mannheim, Germany) and Poly-A control transcripts (Affymetrix, Santa Clara, CA, USA). The generated cRNA was purified using the GeneChip Sample Cleanup Module (Affymetrix) and quantified using the NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA). The incubation steps during the cDNA synthesis, in vitro transcription reaction, and target fragmentation were performed using the Hybex Microarray Incubation System (SciGene, Sunnyvale, CA, USA) and Eppendorf ThermoStat plus instruments (Eppendorf, Hamburg, Germany).
| | Sample_hyb_protocol | Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
| | Sample_scan_protocol | Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
| | Sample_data_processing | The Robust Multichip Average (RMA) algorithm as implemented in the R package affy (version 1.28.0) was applied to generate probe set level signal intensities. (Irizarry et al., Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics. 2003 Apr;4(2):249-64)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Hans-Ulrich,,Klein
| | Sample_contact_email | h.klein@uni-muenster.de
| | Sample_contact_department | Medical Informatics
| | Sample_contact_institute | University of Münster
| | Sample_contact_address | Albert-Schweitzer-Camps 1, A11
| | Sample_contact_city | Münster
| | Sample_contact_zip/postal_code | 48149
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM755nnn/GSM755024/suppl/GSM755024.CEL.gz
| | Sample_series_id | GSE30442
| | Sample_data_row_count | 54675
| | |
|
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