GSE32063 {MetaGxOvarian} | R Documentation |
High-grade serous ovarian cancers are heterogeneous not only in terms of clinical outcome but also at the molecular level. Our aim was to establish a novel risk classification system based on a gene expression signature for predicting overall survival, leading to suggesting novel therapeutic strategies for high-risk patients.In this large-scale cross-platform study of six microarray data sets consisting of 1,054 ovarian cancer patients, we developed a gene expression signature for predicting overall survival by applying elastic net and 10-fold cross-validation to a Japanese data set A (n = 260) and evaluated the signature in five other data sets. Subsequently, we investigated differences in the biological characteristics between high- and low-risk ovarian cancer groups.An elastic net analysis identified a 126-gene expression signature for predicting overall survival in patients with ovarian cancer using the Japanese data set A (multivariate analysis, P = 4 ?? 10(-20)). We validated its predictive ability with five other data sets using multivariate analysis (Tothill's data set, P = 1 ?? 10(-5); Bonome's data set, P = 0.0033; Dressman's data set, P = 0.0016; TCGA data set, P = 0.0027; Japanese data set B, P = 0.021). Through gene ontology and pathway analyses, we identified a significant reduction in expression of immune-response-related genes, especially on the antigen presentation pathway, in high-risk ovarian cancer patients.This risk classification based on the 126-gene expression signature is an accurate predictor of clinical outcome in patients with advanced stage high-grade serous ovarian cancer and has the potential to develop new therapeutic strategies for high-grade serous ovarian cancer patients.
experimentData(eset): Experiment data Experimenter name: Yoshihara K, Tsunoda T, Shigemizu D, Fujiwara H et al. High-risk ovarian cancer based on 126-gene expression signature is uniquely characterized by downregulation of antigen presentation pathway. Clin Cancer Res 2012 Mar 1;18(5):1374-85. Laboratory: Yoshihara, Tanaka 2012 Contact information: Title: High-risk ovarian cancer based on 126-gene expression signature is uniquely characterized by downregulation of antigen presentation pathway. URL: PMIDs: 22241791 Abstract: A 255 word abstract is available. Use 'abstract' method. Information is available on: preprocessing notes: platform_title: Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name vers ion) platform_shorttitle: Agilent G4112F platform_summary: hgug4112a platform_manufacturer: Agilent platform_distribution: commercial platform_accession: GPL6480 version: 2015-09-22 19:58:23 featureData(eset): An object of class 'AnnotatedDataFrame' featureNames: A_23_P100001 A_23_P100011 ... A_32_P99902 (30936 total) varLabels: probeset gene EntrezGene.ID best_probe varMetadata: labelDescription
assayData: 30936 features, 40 samples Platform type: Overall survival time-to-event summary (in years): Call: survfit(formula = Surv(time, cens) ~ -1) n events median 0.95LCL 0.95UCL 40.00 22.00 4.44 3.29 NA --------------------------- Available sample meta-data: --------------------------- alt_sample_name: 106 108 109R 110 111R 192 195R 196 197 198 200 203 205 206 207 213 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 222 224 226 229 230 231 274 277 278 280 281 282 283 284 285 286 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 287 288 289 291 292 294 297R 298R 1 1 1 1 1 1 1 1 sample_type: tumor 40 histological_type: ser 40 summarygrade: high low 17 23 summarystage: late 40 tumorstage: 3 4 31 9 substage: b c NA's 3 28 9 grade: 2 3 23 17 pltx: y 40 tax: y 40 days_to_death: Min. 1st Qu. Median Mean 3rd Qu. Max. 210 705 1155 1346 1792 3330 vital_status: deceased living 22 18 debulking: optimal suboptimal 19 21 uncurated_author_metadata: title: serous ovarian cancer 106///geo_accession: GSM795125///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 15///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 26///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795125/GSM795125_s106.txt.gz///data_row_count: 41093///relation: Reanalysis of: GSM432223 1 title: serous ovarian cancer 108///geo_accession: GSM795126///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIb///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 37///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 37///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795126/GSM795126_s108.txt.gz///data_row_count: 41093///relation: Reanalysis of: GSM432225 1 title: serous ovarian cancer 109R///geo_accession: GSM795127///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 7///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 20///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795127/GSM795127_s109R.txt.gz///data_row_count: 41093///relation: Reanalysis of: GSM432226 1 title: serous ovarian cancer 110///geo_accession: GSM795128///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 97///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 97///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795128/GSM795128_s110.txt.gz///data_row_count: 41093///relation: Reanalysis of: GSM432228 1 title: serous ovarian cancer 111R///geo_accession: GSM795129///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 18///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 57///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795129/GSM795129_s111R.txt.gz///data_row_count: 41093///relation: Reanalysis of: GSM432229 1 title: serous ovarian cancer 192///geo_accession: GSM795130///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 20///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 27///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795130/GSM795130_s192.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 195R///geo_accession: GSM795131///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 6///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 40///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795131/GSM795131_s195R.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 196///geo_accession: GSM795132///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 28///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 37///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795132/GSM795132_s196.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 197///geo_accession: GSM795133///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIb///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 47///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 47///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795133/GSM795133_s197.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 198///geo_accession: GSM795134///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 8///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 24///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795134/GSM795134_s198.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 200///geo_accession: GSM795135///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 6///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 27///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795135/GSM795135_s200.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 203///geo_accession: GSM795136///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 26///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 46///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795136/GSM795136_s203.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 205///geo_accession: GSM795137///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 43///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 78///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795137/GSM795137_s205.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 206///geo_accession: GSM795138///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 21///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 87///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795138/GSM795138_s206.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 207///geo_accession: GSM795139///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 30///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 30///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795139/GSM795139_s207.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 213///geo_accession: GSM795140///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 15///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 35///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795140/GSM795140_s213.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 222///geo_accession: GSM795141///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 12///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 12///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795141/GSM795141_s222.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 224///geo_accession: GSM795142///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 11///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 16///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795142/GSM795142_s224.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 226///geo_accession: GSM795143///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 11///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 11///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795143/GSM795143_s226.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 229///geo_accession: GSM795144///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 9///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 9///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795144/GSM795144_s229.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 230///geo_accession: GSM795145///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 8///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 8///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795145/GSM795145_s230.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 231///geo_accession: GSM795146///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 7///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 7///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795146/GSM795146_s231.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 274///geo_accession: GSM795147///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 35///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 101///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795147/GSM795147_s274.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 277///geo_accession: GSM795148///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 73///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 109///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795148/GSM795148_s277.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 278///geo_accession: GSM795149///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 16///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 21///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795149/GSM795149_s278.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 280///geo_accession: GSM795150///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 68///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 68///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795150/GSM795150_s280.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 281///geo_accession: GSM795151///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 8///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 15///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795151/GSM795151_s281.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 282///geo_accession: GSM795152///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 82///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 82///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795152/GSM795152_s282.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 283///geo_accession: GSM795153///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 12///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 49///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795153/GSM795153_s283.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 284///geo_accession: GSM795154///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 111///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 111///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795154/GSM795154_s284.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 285///geo_accession: GSM795155///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 82///characteristics_ch1.7: rec (1): 0///characteristics_ch1.8: os (m): 82///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795155/GSM795155_s285.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 286///geo_accession: GSM795156///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 8///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 22///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795156/GSM795156_s286.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 287///geo_accession: GSM795157///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 12///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 40///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795157/GSM795157_s287.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 288///geo_accession: GSM795158///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 9///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 24///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795158/GSM795158_s288.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 289///geo_accession: GSM795159///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIb///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 14///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 40///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795159/GSM795159_s289.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 291///geo_accession: GSM795160///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 15///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 48///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795160/GSM795160_s291.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 292///geo_accession: GSM795161///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 28///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 54///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795161/GSM795161_s292.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 294///geo_accession: GSM795162///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 3///characteristics_ch1.2: Stage: IIIc///characteristics_ch1.3: surgery status: optimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 49///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 70///characteristics_ch1.9: death (1): 0///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795162/GSM795162_s294.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 297R///geo_accession: GSM795163///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 2///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 24///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795163/GSM795163_s297R.txt.gz///data_row_count: 41093///relation: 1 title: serous ovarian cancer 298R///geo_accession: GSM795164///status: Public on Mar 01 2012///submission_date: Sep 12 2011///last_update_date: Mar 01 2012///type: RNA///channel_count: 1///source_name_ch1: high-grade serous ovarian cancer///organism_ch1: Homo sapiens///characteristics_ch1: tissue: tumor///characteristics_ch1.1: grading: 2///characteristics_ch1.2: Stage: IV///characteristics_ch1.3: surgery status: suboptimal///characteristics_ch1.4: taxane: 1///characteristics_ch1.5: platinum: 1///characteristics_ch1.6: pfs (m): 31///characteristics_ch1.7: rec (1): 1///characteristics_ch1.8: os (m): 57///characteristics_ch1.9: death (1): 1///molecule_ch1: total RNA///extract_protocol_ch1: Total RNA was extracted from tissue samples using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's recommendations. RNA was examined with a 2100 Bioanalyzer (Agilent Technologies Inc., Palo Alto, CA, USA) using an RNA 6000 Nano LabChip (Agilent Technologies)///label_ch1: Cy3///label_protocol_ch1: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labering Kit, one-color (Agilent Technologies) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).///taxid_ch1: 9606///hyb_protocol: Cy3-labeled cRNAs (1.65 g) were hybridized for 17 hours at 65C to an Agilent Whole Human Genome Oligo Microarray in a rotating Agilent hybridization oven.///scan_protocol: The hybridized microarray was washed and then scanned in Cy3 channel with the Agilent DNA Microarray Scanner (model G2565AA).///data_processing: Signal intensity per spot was generated from the scanned image with Feature Extraction Software ver.9.1 (Agilent Technologies) in the default settings.///platform_id: GPL6480///contact_name: Kosuke,,Yoshihara///contact_email: yoshikou@med.niigata-u.ac.jp///contact_department: Obstetrics and Gynecology///contact_institute: Niigata University///contact_address: 1-757 Asahimachi-dori///contact_city: Niigata///contact_zip.postal_code: 951-8510///contact_country: Japan///supplementary_file: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM795nnn/GSM795164/GSM795164_s298R.txt.gz///data_row_count: 41093///relation: 1
An expression set