Search results for the GEO ID: GSE26966  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM663736 | GPL570 |
|
N010, normal pituitary, biological rep 1
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: M
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-06-04
|
|
| Sample_geo_accession | GSM663736
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663736/suppl/GSM663736.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663737 | GPL570 |
|
N018, normal pituitary, biological rep 2
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: F
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-07-01
|
|
| Sample_geo_accession | GSM663737
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663737/suppl/GSM663737.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663738 | GPL570 |
|
N019, normal pituitary, biological rep 3
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: F
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-07-01
|
|
| Sample_geo_accession | GSM663738
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663738/suppl/GSM663738.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663739 | GPL570 |
|
N022, normal pituitary, biological rep 4
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: F
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-08-26
|
|
| Sample_geo_accession | GSM663739
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663739/suppl/GSM663739.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663740 | GPL570 |
|
N025, normal pituitary, biological rep 5
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: M
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-08-26
|
|
| Sample_geo_accession | GSM663740
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663740/suppl/GSM663740.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663741 | GPL570 |
|
N027, normal pituitary, biological rep 6
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: F
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2004-08-26
|
|
| Sample_geo_accession | GSM663741
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663741/suppl/GSM663741.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663742 | GPL570 |
|
N028, normal pituitary, biological rep 7
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: M
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663742
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663742/suppl/GSM663742.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663743 | GPL570 |
|
N029, normal pituitary, biological rep 8
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: M
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663743
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663743/suppl/GSM663743.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663744 | GPL570 |
|
N036, normal pituitary, biological rep 9
|
Normal human pituitary obtained at autopsy within 2 - 18 hours of death
|
tissue (group): Normal pituitary
gender: F
subclass: N/A
invasive: N/A
recurrent: N/A
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663744
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663744/suppl/GSM663744.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663745 | GPL570 |
|
T001, human gonadotrope/null cell tumor, biological rep 1
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: No
recurrent: No
scan_date: 2004-06-04
|
|
| Sample_geo_accession | GSM663745
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663745/suppl/GSM663745.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663746 | GPL570 |
|
T002, human gonadotrope/null cell tumor, biological rep 2
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: No
recurrent: No
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663746
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663746/suppl/GSM663746.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663747 | GPL570 |
|
T003, human gonadotrope/null cell tumor, biological rep 3
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: No
recurrent: No
scan_date: 2004-07-01
|
|
| Sample_geo_accession | GSM663747
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663747/suppl/GSM663747.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663748 | GPL570 |
|
T018, human gonadotrope/null cell tumor, biological rep 4
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Gonadotrope
invasive: No
recurrent: No
scan_date: 2004-06-04
|
|
| Sample_geo_accession | GSM663748
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663748/suppl/GSM663748.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663749 | GPL570 |
|
T023, human gonadotrope/null cell tumor, biological rep 5
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Null
invasive: No
recurrent: No
scan_date: 2004-08-26
|
|
| Sample_geo_accession | GSM663749
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663749/suppl/GSM663749.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663750 | GPL570 |
|
T024, human gonadotrope/null cell tumor, biological rep 6
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Gonadotrope
invasive: Yes
recurrent: No
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663750
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663750/suppl/GSM663750.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663751 | GPL570 |
|
T028, human gonadotrope/null cell tumor, biological rep 7
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: No
recurrent: No
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663751
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663751/suppl/GSM663751.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663752 | GPL570 |
|
T030, human gonadotrope/null cell tumor, biological rep 8
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: No
recurrent: Yes
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663752
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663752/suppl/GSM663752.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663753 | GPL570 |
|
T032, human gonadotrope/null cell tumor, biological rep 9
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Gonadotrope
invasive: Yes
recurrent: No
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663753
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663753/suppl/GSM663753.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663754 | GPL570 |
|
T034, human gonadotrope/null cell tumor, biological rep 10
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Null
invasive: Yes
recurrent: Yes
scan_date: 2005-04-15
|
|
| Sample_geo_accession | GSM663754
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663754/suppl/GSM663754.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663755 | GPL570 |
|
T078, human gonadotrope/null cell tumor, biological rep 11
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: Yes
recurrent: Yes
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663755
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663755/suppl/GSM663755.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663756 | GPL570 |
|
T119, human gonadotrope/null cell tumor, biological rep 12
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Null
invasive: Yes
recurrent: No
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663756
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663756/suppl/GSM663756.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663757 | GPL570 |
|
T149, human gonadotrope/null cell tumor, biological rep 13
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: M
subclass: Gonadotrope
invasive: Yes
recurrent: Yes
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663757
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663757/suppl/GSM663757.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
GSM663758 | GPL570 |
|
T176, human gonadotrope/null cell tumor, biological rep 14
|
Human gonadotrope/null cell tumor collected at the time of transsphenoidal surgery
|
tissue (group): Gonadotrope tumor
gender: F
subclass: Null
invasive: Yes
recurrent: Yes
scan_date: 2009-10-23
|
|
| Sample_geo_accession | GSM663758
| | Sample_status | Public on Jan 31 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Jan 31 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | With informed consent, pituitary tumor samples were obtained from patients at University of Colorado Hospital at the time of transsphenoidal surgery. Portions of the specimens not used for histology and immunohistochemistry were placed in RNAlater and stored at -80C. Gonadotrope tumors were defined as demonstrating positive immunostaining for FSH, LH, or alpha subunit in greater than 5-10% of cells. Null cell adenomas were defined by gonadotropic staining for FSH, LH, or alpha subunit in less than 5-10% of cells. Normal pituitary glands used as controls were obtained at autopsy within 2 - 18 hours of death from University of Colorado Denver Pathology Department.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Microarray targets were prepared and labeled from 300ng of total RNA using the MessageAmp Premier RNA Amplification Kit (Applied Biosystems/Ambion, Austin, TX) following the manufactures instructions.
| | Sample_hyb_protocol | standard Affymetrix procedures
| | Sample_scan_protocol | standard Affymetrix procedures, using the Affy GCS3000
| | Sample_data_processing | Hybridization intensities were quantified and normalized across all arrays using the RMA algorithm with GC adjust available as an array processing tool on Partek® Genomics Suite™ 6.5 software (St.Louis, MS). Data were filtered to remove all genes considered absent, as determined by the Affymetrix GeneChip Operating Software (GCOS), in greater than 95% of all the samples (22 out of 23 total samples). Remaining transcripts (38,932 of 54,675) were used for all subsequent statistical and visual analysis. A mixed model ANOVA was employed to estimate the batch effect and the data were adjusted using the Partek Batch Remover™ tool available on Partek Genomics Suite.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,,Edwards
| | Sample_contact_email | michael.edwards@ucdenver.edu
| | Sample_contact_phone | 303-724-6054
| | Sample_contact_fax | 303-724-6042
| | Sample_contact_department | Pulmonary
| | Sample_contact_institute | UC Denver
| | Sample_contact_address | 12700 East 19th Avenue, Box C272
| | Sample_contact_city | Aurora
| | Sample_contact_state | CO
| | Sample_contact_zip/postal_code | 80045
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM663nnn/GSM663758/suppl/GSM663758.CEL.gz
| | Sample_series_id | GSE26966
| | Sample_data_row_count | 38932
| | |
|
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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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