Search results for the GEO ID: GSE28694  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM710497 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE132
|
Breast tumor biopsy, Prechemotherapy
|
age: 49
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE132
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710497
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710497/suppl/GSM710497.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710508 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE144
|
Breast tumor biopsy, Prechemotherapy
|
age: 39
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE144
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710508
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710508/suppl/GSM710508.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710509 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE156
|
Breast tumor biopsy, Prechemotherapy
|
age: 59
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE156
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710509
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710509/suppl/GSM710509.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710510 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE176
|
Breast tumor biopsy, Prechemotherapy
|
age: 45
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE176
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710510
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710510/suppl/GSM710510.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710511 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE180
|
Breast tumor biopsy, Prechemotherapy
|
age: 63
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE180
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710511
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710511/suppl/GSM710511.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710512 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE186
|
Breast tumor biopsy, Prechemotherapy
|
age: 38
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE186
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710512
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710512/suppl/GSM710512.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710527 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE190
|
Breast tumor biopsy, Prechemotherapy
|
age: 47
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE190
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710527
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710527/suppl/GSM710527.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710528 | GPL570 |
|
Breast tumor biopsy_Prechemotherapy_08SE278
|
Breast tumor biopsy, Prechemotherapy
|
age: 39
gender: female
tissue: breast tumor
trucut biopsy: 3.5 cm x 1.75 mm
tumor biopsy acquisition: Such biopsy was taken at diagnosis
treatment: none (Prechemotherapy)
sample_id: 08SE278
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710528
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710528/suppl/GSM710528.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710555 | GPL570 |
|
Breast tumor biopsy_Postchemotherapy_08SE133
|
Breast tumor biopsy, Postchemotherapy
|
age: 49
gender: female
tissue: breast tumor
tumor biopsy acquisition: Such biopsy was taken from surgery specimen and selected by the pathologist in charge within 30 min. after tumor removal
treatment: A
sample_id: 08SE133
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710555
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710555/suppl/GSM710555.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710612 | GPL570 |
|
Breast tumor biopsy_Postchemotherapy_08SE157
|
Breast tumor biopsy, Postchemotherapy
|
age: 59
gender: female
tissue: breast tumor
tumor biopsy acquisition: Such biopsy was taken from surgery specimen and selected by the pathologist in charge within 30 min. after tumor removal
treatment: C
sample_id: 08SE157
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710612
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710612/suppl/GSM710612.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710613 | GPL570 |
|
Breast tumor biopsy_Postchemotherapy_08SE177
|
Breast tumor biopsy, Postchemotherapy
|
age: 45
gender: female
tissue: breast tumor
tumor biopsy acquisition: Such biopsy was taken from surgery specimen and selected by the pathologist in charge within 30 min. after tumor removal
treatment: A
sample_id: 08SE177
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710613
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710613/suppl/GSM710613.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710633 | GPL570 |
|
Breast tumor biopsy_Postchemotherapy_08SE181
|
Breast tumor biopsy, Postchemotherapy
|
age: 63
gender: female
tissue: breast tumor
tumor biopsy acquisition: Such biopsy was taken from surgery specimen and selected by the pathologist in charge within 30 min. after tumor removal
treatment: C
sample_id: 08SE181
pathologic response to chemotherapy (miller & payne grade): 4
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710633
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710633/suppl/GSM710633.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
GSM710634 | GPL570 |
|
Breast tumor biopsy_Postchemotherapy_08SE279+08SE280
|
Breast tumor biopsy, Postchemotherapy
|
age: 39
gender: female
tissue: breast tumor
tumor biopsy acquisition: Such biopsy was taken from surgery specimen and selected by the pathologist in charge within 30 min. after tumor removal
treatment: A
sample_id: 08SE279+08SE280
pathologic response to chemotherapy (miller & payne grade): 5
|
Affymetrix Standard Protocol
|
| Sample_geo_accession | GSM710634
| | Sample_status | Public on Dec 12 2012
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Dec 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | RNA processing: snap frozen in liquid nitrogen and preserved at -80ºC. Before RNA extraction protocol, samples were sectioned in a cryostat to evalute the celularity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using using an RNeasy minikit from Qiagen. Quality and quantity was assessed by agarose electrophoresis and spectrophotometric analysis (Absorbance 260/280 nm)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix's GeneChip IVT Labelling Kit (Affymetrix)
| | Sample_hyb_protocol | Affymetrix GeneChip Hybridization Standard Protocol
| | Sample_scan_protocol | Affymetrix GeneChip Scan Standard Protocol
| | Sample_data_processing | Data were pre-processed by RMA method, filtered and normalized using Partek Genomics Suite v7.3.1 (Partek). Data were filtered again and a lineal regression model was applied to detect significant differences in gene expression between groups. Expression ratios of the differentially expressed genes are presented as fold changes.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,,Vera
| | Sample_contact_email | lvera@correo.ugr.es
| | Sample_contact_phone | +34953220306
| | Sample_contact_department | Department of Oncology
| | Sample_contact_institute | Hospital Medico-Quirurgico de Jaen
| | Sample_contact_address | Avenida del Ejercito Español 10
| | Sample_contact_city | Jaen
| | Sample_contact_state | Jaen
| | Sample_contact_zip/postal_code | 23007
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710634/suppl/GSM710634.CEL.gz
| | Sample_series_id | GSE28694
| | Sample_series_id | GSE28844
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
