Search results for the GEO ID: GSE3254 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM73344 | GPL8300 |
|
Universal Human Reference RNA Affy_labeling replicate 1
|
Universal Human Reference RNA, Affy_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73344
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. It is called the 'Affy' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 16 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73344/suppl/GSM73344.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73344/suppl/GSM73344.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73345 | GPL8300 |
|
Universal Human Reference RNA Affy_labeling replicate 2
|
Universal Human Reference RNA, Affy_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73345
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. It is called the 'Affy' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 16 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73345/suppl/GSM73345.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73345/suppl/GSM73345.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73346 | GPL8300 |
|
Universal Human Reference RNA Affy_labeling replicate 3
|
Universal Human Reference RNA, Affy_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73346
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. It is called the 'Affy' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 16 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73346/suppl/GSM73346.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73346/suppl/GSM73346.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73347 | GPL8300 |
|
Universal Human Reference RNA Affy_labeling replicate 4
|
Universal Human Reference RNA, Affy_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73347
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. It is called the 'Affy' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 16 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73347/suppl/GSM73347.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73347/suppl/GSM73347.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73348 | GPL8300 |
|
Universal Human Reference RNA Affy_labeling replicate 5
|
Universal Human Reference RNA, Affy_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73348
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. It is called the 'Affy' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 16 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73348/suppl/GSM73348.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73348/suppl/GSM73348.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73349 | GPL8300 |
|
Universal Human Reference RNA CodeLink_labeling replicate 1
|
Universal Human Reference RNA, CodeLink_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73349
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The CodeLink Expression Assay Reagent Kit (GE Healthcare, Piscataway, NJ) is used. It is called the 'CodeLink' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 14 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73349/suppl/GSM73349.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73349/suppl/GSM73349.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73350 | GPL8300 |
|
Universal Human Reference RNA CodeLink_labeling replicate 2
|
Universal Human Reference RNA, CodeLink_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73350
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The CodeLink Expression Assay Reagent Kit (GE Healthcare, Piscataway, NJ) is used. It is called the 'CodeLink' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 14 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73350/suppl/GSM73350.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73350/suppl/GSM73350.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73351 | GPL8300 |
|
Universal Human Reference RNA CodeLink_labeling replicate 3
|
Universal Human Reference RNA, CodeLink_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73351
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The CodeLink Expression Assay Reagent Kit (GE Healthcare, Piscataway, NJ) is used. It is called the 'CodeLink' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 14 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73351/suppl/GSM73351.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73351/suppl/GSM73351.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73352 | GPL8300 |
|
Universal Human Reference RNA CodeLink_labeling replicate 4
|
Universal Human Reference RNA, CodeLink_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73352
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The CodeLink Expression Assay Reagent Kit (GE Healthcare, Piscataway, NJ) is used. It is called the 'CodeLink' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 14 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73352/suppl/GSM73352.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73352/suppl/GSM73352.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73353 | GPL8300 |
|
Universal Human Reference RNA CodeLink_labeling replicate 5
|
Universal Human Reference RNA, CodeLink_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73353
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The CodeLink Expression Assay Reagent Kit (GE Healthcare, Piscataway, NJ) is used. It is called the 'CodeLink' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 14 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73353/suppl/GSM73353.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73353/suppl/GSM73353.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73354 | GPL8300 |
|
Universal Human Reference RNA Enzo_labeling replicate 1
|
Universal Human Reference RNA, Enzo_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73354
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Enzo BioArray High Yield™ RNA Transcript Labeling Kit is used. It is called the 'Enzo' method in the paper. Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin and CTP-biotin were used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73354/suppl/GSM73354.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73354/suppl/GSM73354.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73355 | GPL8300 |
|
Universal Human Reference RNA Enzo_labeling replicate 2
|
Universal Human Reference RNA, Enzo_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73355
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Enzo BioArray High Yield™ RNA Transcript Labeling Kit is used. It is called the 'Enzo' method in the paper. Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin and CTP-biotin were used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73355/suppl/GSM73355.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73355/suppl/GSM73355.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73356 | GPL8300 |
|
Universal Human Reference RNA Enzo_labeling replicate 3
|
Universal Human Reference RNA, Enzo_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73356
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Enzo BioArray High Yield™ RNA Transcript Labeling Kit is used. It is called the 'Enzo' method in the paper. Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin and CTP-biotin were used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73356/suppl/GSM73356.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73356/suppl/GSM73356.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73357 | GPL8300 |
|
Universal Human Reference RNA Enzo_labeling replicate 4
|
Universal Human Reference RNA, Enzo_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73357
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Enzo BioArray High Yield™ RNA Transcript Labeling Kit is used. It is called the 'Enzo' method in the paper. Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin and CTP-biotin were used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73357/suppl/GSM73357.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73357/suppl/GSM73357.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73358 | GPL8300 |
|
Universal Human Reference RNA Enzo_labeling replicate 5
|
Universal Human Reference RNA, Enzo_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73358
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Enzo BioArray High Yield™ RNA Transcript Labeling Kit is used. It is called the 'Enzo' method in the paper. Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin and CTP-biotin were used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73358/suppl/GSM73358.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73358/suppl/GSM73358.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73359 | GPL8300 |
|
Universal Human Reference RNA Affy4h_labeling replicate 1
|
Universal Human Reference RNA, Affy4h_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73359
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. However, the length of the in vitro transcription reaction is truncated to 4 hours. Therefore, it is called the 'Affy4h' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73359/suppl/GSM73359.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73359/suppl/GSM73359.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73360 | GPL8300 |
|
Universal Human Reference RNA Affy4h_labeling replicate 2
|
Universal Human Reference RNA, Affy4h_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73360
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. However, the length of the in vitro transcription reaction is truncated to 4 hours. Therefore, it is called the 'Affy4h' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73360/suppl/GSM73360.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73360/suppl/GSM73360.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73361 | GPL8300 |
|
Universal Human Reference RNA Affy4h_labeling replicate 3
|
Universal Human Reference RNA, Affy4h_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73361
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. However, the length of the in vitro transcription reaction is truncated to 4 hours. Therefore, it is called the 'Affy4h' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73361/suppl/GSM73361.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73361/suppl/GSM73361.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73362 | GPL8300 |
|
Universal Human Reference RNA Affy4h_labeling replicate 4
|
Universal Human Reference RNA, Affy4h_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73362
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. However, the length of the in vitro transcription reaction is truncated to 4 hours. Therefore, it is called the 'Affy4h' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73362/suppl/GSM73362.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73362/suppl/GSM73362.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
| |
|
GSM73363 | GPL8300 |
|
Universal Human Reference RNA Affy4h_labeling replicate 5
|
Universal Human Reference RNA, Affy4h_labeling
|
Human Cell Lines, malignancy
|
Stratagene’s Universal Human Reference RNA is composed of total RNA from 10 human cell lines. The reference RNA is designed to be used as a reference for microarray gene-profiling experiments. Since RNA species differ in abundance between cell lines, an ideal reference sample should represent these different RNAs. Equal quantities of DNase-treated total RNA from each cell line were pooled to make the Universal Human Reference RNA. The ten cell lines are cell lines of the adenocarcinoma of the mammary gland, melanoma, liver hepatoblastoma, liposarcoma, adenocarcinoma of the cervix, histocytic lymphoma (macrophage, histocyte), embryonal carcinoma of the testis, lymphoblastic leukemia (T lymphoblast), glioblastoma of brain, and plasmacytoma (myeloma; B lymphocyte).
|
Sample_geo_accession | GSM73363
| Sample_status | Public on Jan 01 2006
| Sample_submission_date | Sep 06 2005
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_biomaterial_provider_ch1 | Stratagene Corp. La Jolla, CA
| Sample_molecule_ch1 | total RNA
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The Affymetrix GeneChip® Expression 3’-amplification Reagents for IVT labeling kit is used. However, the length of the in vitro transcription reaction is truncated to 4 hours. Therefore, it is called the 'Affy4h' method in the paper. Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets. UTP-biotin was used for labeling and the in vitro transcription reaction lasts for 4 hours.
| Sample_hyb_protocol | standard Affymetrix procedures
| Sample_scan_protocol | standard Affymetrix procedures
| Sample_data_processing | Affymetrix Microarray Suite version 5.0 for detection calls and detection p-value; dChip v1.3 algorithm is used to calculate the signal intensity values with the invariant set normalization and the PM-only model.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73363/suppl/GSM73363.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM73nnn/GSM73363/suppl/GSM73363.EXP.gz
| Sample_series_id | GSE3254
| Sample_data_row_count | 12625
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Make groups for comparisons |
(2 groups will be compared at a time) |
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Select GSMs and click on "Add groups" |
Enter the group name here: |
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