Andy Chu
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View article: Comprehensive molecular characterization of gastric adenocarcinoma
Comprehensive molecular characterization of gastric adenocarcinoma Open
Gastric cancer is a leading cause of cancer deaths, but analysis of its molecular and clinical characteristics has been complicated by histological and aetiological heterogeneity. Here we describe a comprehensive molecular evaluation of 29…
View article: Integrated genomic characterization of endometrial carcinoma
Integrated genomic characterization of endometrial carcinoma Open
SummaryWe performed an integrated genomic, transcriptomic, and proteomic characterization of 373 endometrial carcinomas using array- and sequencing-based technologies. Uterine serous tumors and ~25% of high-grade endometrioid tumors have e…
View article: Comprehensive molecular profiling of lung adenocarcinoma: The cancer genome atlas research network
Comprehensive molecular profiling of lung adenocarcinoma: The cancer genome atlas research network Open
Adenocarcinoma of the lung is the leading cause of cancer death worldwide. Here we report molecular profiling of 230 resected lung adenocarcinomas using messenger RNA, microRNA and DNA sequencing integrated with copy number, methylation an…
View article: Comprehensive molecular portraits of human breast tumours
Comprehensive molecular portraits of human breast tumours Open
This Article from the Cancer Genome Atlas consortium describes a multifaceted analysis of primary breast cancers in 825 people. Exome sequencing, copy number variation, DNA methylation, messenger RNA arrays, microRNA sequencing and proteom…
View article: The Somatic Genomic Landscape of Chromophobe Renal Cell Carcinoma
The Somatic Genomic Landscape of Chromophobe Renal Cell Carcinoma Open
We describe the landscape of somatic genomic alterations of 66 chromophobe renal cell carcinomas (ChRCCs) based on multidimensional and comprehensive characterization, including mitochondrial DNA (mtDNA) and whole genome sequencing. The re…
View article: Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin
Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin Open
Recent genomic analyses of pathologically-defined tumor types identify “within-a-tissue” disease subtypes. However, the extent to which genomic signatures are shared across tissues is still unclear. We performed an integrative analysis usi…
View article: miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer
miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer Open
Ovarian cancer presents as an aggressive, advanced stage cancer with widespread metastases that depend primarily on multicellular spheroids in the peritoneal fluid. To identify new druggable pathways related to metastatic progression and s…
View article: Validation and calibration of next-generation sequencing to identify Epstein-Barr virus-positive gastric cancer in The Cancer Genome Atlas
Validation and calibration of next-generation sequencing to identify Epstein-Barr virus-positive gastric cancer in The Cancer Genome Atlas Open
The Epstein-Barr virus (EBV)-positive subtype of gastric adenocarcinoma is conventionally identified by in situ hybridization (ISH) for viral nucleic acids, but next-generation sequencing represents a potential alternative. We therefore de…
View article: Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin
Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin Open
Recent genomic analyses of pathologically defined tumor types identify “within-a-tissue” disease subtypes. However, the extent to which genomic signatures are shared across tissues is still unclear. We performed an integrative analysis usi…
View article: Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma
Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma Open
View article: Correction: miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer
Correction: miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer Open
View article: Deep Learning with Differential Privacy
Deep Learning with Differential Privacy Open
Machine learning techniques based on neural networks are achieving remarkable\nresults in a wide variety of domains. Often, the training of models requires\nlarge, representative datasets, which may be crowdsourced and contain sensitive\ni…
View article: miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer
miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer Open
Ovarian cancer presents as an aggressive, advanced stage cancer with widespread metastases that depend primarily on multicellular spheroids in the peritoneal fluid. To identify new druggable pathways related to metastatic progression and s…
View article: The Molecular Taxonomy of Primary Prostate Cancer
The Molecular Taxonomy of Primary Prostate Cancer Open
There is substantial heterogeneity among primary prostate cancers, evident in the spectrum of molecular abnormalities and its variable clinical course. As part of The Cancer Genome Atlas (TCGA), we present a comprehensive molecular analysi…
View article: The Molecular Taxonomy of Primary Prostate Cancer
The Molecular Taxonomy of Primary Prostate Cancer Open
© 2015 Elsevier Inc. Summary There is substantial heterogeneity among primary prostate cancers, evident in the spectrum of molecular abnormalities and its variable clinical course. As part of The Cancer Genome Atlas (TCGA), we present a c…
View article: Large-scale profiling of microRNAs for The Cancer Genome Atlas
Large-scale profiling of microRNAs for The Cancer Genome Atlas Open
The comprehensive multiplatform genomics data generated by The Cancer Genome Atlas (TCGA) Research Network is an enabling resource for cancer research. It includes an unprecedented amount of microRNA sequence data: ~11 000 libraries across…
View article: Validation and calibration of next-generation sequencing to identify Epstein-Barr virus-positive gastric cancer in The Cancer Genome Atlas
Validation and calibration of next-generation sequencing to identify Epstein-Barr virus-positive gastric cancer in The Cancer Genome Atlas Open
View article: Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas
Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas Open
The integration of genomewide data from multiple platforms delineated three molecular classes of lower-grade gliomas that were more concordant with IDH, 1p/19q, and TP53 status than with histologic class. Lower-grade gliomas with an IDH mu…
View article: Genomic Classification of Cutaneous Melanoma
Genomic Classification of Cutaneous Melanoma Open
View article: Epigenetic and transcriptional determinants of the human breast
Epigenetic and transcriptional determinants of the human breast Open
View article: Comprehensive miRNA sequence analysis reveals survival differences in diffuse large B-cell lymphoma patients
Comprehensive miRNA sequence analysis reveals survival differences in diffuse large B-cell lymphoma patients Open
Background Diffuse large B-cell lymphoma (DLBCL) is an aggressive disease, with 30% to 40% of patients failing to be cured with available primary therapy. microRNAs (miRNAs) are RNA molecules that attenuate expression of their mRNA targets…
View article: Comprehensive genomic characterization of head and neck squamous cell carcinomas
Comprehensive genomic characterization of head and neck squamous cell carcinomas Open
The Cancer Genome Atlas profiled 279 head and neck squamous cell carcinomas (HNSCCs) to provide a comprehensive landscape of somatic genomic alterations. Here we show that human-papillomavirus-associated tumours are dominated by helical do…