Simultaneous Interrogation of Cancer Omics to Identify Subtypes With Significant Clinical Differences

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

–Omic and Electronic Health Record Big Data Analytics for Precision Medicine

(2017) Po-Yen Wu et al.   IEEE TRANSACTIONS ON BIOMEDICAL ENGINEERING

Integrated genomic and molecular characterization of cervical cancer

(2017)   NATURE

miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions

(2017) Chih-Hung Chou et al.   NUCLEIC ACIDS RESEARCH

Clusternomics: Integrative context-dependent clustering for heterogeneous datasets

(2017) Evelina Gabasova et al.   PLoS Computational Biology

More Is Better: Recent Progress in Multi-Omics Data Integration Methods

(2017) Sijia Huang et al.   Frontiers in Genetics

Novel combination of serum microRNA for detecting breast cancer in the early stage

(2016) Akihiko Shimomura et al.   CANCER SCIENCE

Drebrin: A new oncofetal biomarker associated with prognosis of lung adenocarcinoma

(2016) Shinji Iyama et al.   LUNG CANCER

Racial Variation in Breast Tumor Promoter Methylation in the Carolina Breast Cancer Study

(2015) K. Conway et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

Aberrant Expression of proPTPRN2 in Cancer Cells Confers Resistance to Apoptosis

(2015) A. V. Sorokin et al.   CANCER RESEARCH

moCluster: Identifying Joint Patterns Across Multiple Omics Data Sets

(2015) Chen Meng et al.   JOURNAL OF PROTEOME RESEARCH

A novel role for drebrin in regulating progranulin bioactivity in bladder cancer

(2015) Shi-Qiong Xu et al.   Oncotarget

Predictive value of APE1, BRCA1, ERCC1 and TUBB3 expression in patients with advanced non-small cell lung cancer (NSCLC) receiving first-line platinum–paclitaxel chemotherapy

(2014) Zheng Li et al.   CANCER CHEMOTHERAPY AND PHARMACOLOGY

A novel cancer-germline transcript carrying pro-metastatic miR-105 andTET-targeting miR-767 induced by DNA hypomethylation in tumors

(2014) Axelle Loriot et al.   Epigenetics

Identification of intrinsic subtype-specific prognostic microRNAs in primary glioblastoma

(2014) Rui Li et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Similarity network fusion for aggregating data types on a genomic scale

(2014) Bo Wang et al.   NATURE METHODS

Transforming RNA-Seq Data to Improve the Performance of Prognostic Gene Signatures

(2014) Isabella Zwiener et al.   PLoS One

iTRAQ analysis of colorectal cancer cell lines suggests Drebrin (DBN1) is overexpressed during liver metastasis

(2014) Qifeng Lin et al.   PROTEOMICS

Activation of AMPK inhibits cervical cancer cell growth through AKT/FOXO3a/FOXM1 signaling cascade

(2013) Mingo Ming Ho Yung et al.   BMC CANCER

The Cancer Genome Atlas Pan-Cancer analysis project

(2013) John N Weinstein et al.   NATURE GENETICS

Pattern discovery and cancer gene identification in integrated cancer genomic data

(2013) Qianxing Mo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of drebrin in glioma migration and invasion

(2012) Yuzo Terakawa et al.   EXPERIMENTAL CELL RESEARCH

Discovery of multi-dimensional modules by integrative analysis of cancer genomic data

(2012) Shihua Zhang et al.   NUCLEIC ACIDS RESEARCH

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Akt, FoxO and regulation of apoptosis

(2011) Xinbo Zhang et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Prediction of Postoperative Recurrence-Free Survival in Non-Small Cell Lung Cancer by Using an Internationally Validated Gene Expression Model

(2011) R. Mitra et al.   CLINICAL CANCER RESEARCH

Apoptosis in cancer: from pathogenesis to treatment

(2011) Rebecca SY Wong   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Oncogenic Role of miR-483-3p at the IGF2/483 Locus

(2010) A. Veronese et al.   CANCER RESEARCH

International network of cancer genome projects

(2010) Thomas J. Hudson (Chairperson) et al.   NATURE

miR-9, a MYC/MYCN-activated microRNA, regulates E-cadherin and cancer metastasis

(2010) Li Ma et al.   NATURE CELL BIOLOGY

COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer

(2010) S. A. Forbes et al.   NUCLEIC ACIDS RESEARCH

Hsa-miR-9 methylation status is associated with cancer development and metastatic recurrence in patients with clear cell renal cell carcinoma

(2010) M A T Hildebrandt et al.   ONCOGENE

A joint finite mixture model for clustering genes from independent Gaussian and beta distributed data

(2009) Xiaofeng Dai et al.   BMC BIOINFORMATICS

miR-195 and miR-483-5p Identified as Predictors of Poor Prognosis in Adrenocortical Cancer

(2009) P. S. H. Soon et al.   CLINICAL CANCER RESEARCH

The presence of RNA polymerase II, active or stalled, predicts epigenetic fate of promoter CpG islands

(2009) H. Takeshima et al.   GENOME RESEARCH

Molecular profiling of the “plexinome” in melanoma and pancreatic cancer

(2009) Asha Balakrishnan et al.   HUMAN MUTATION

Down-regulated miR-9 and miR-433 in human gastric carcinoma

(2009) Hongchun Luo et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Understanding the Warburg Effect: The Metabolic Requirements of Cell Proliferation

(2009) M. G. Vander Heiden et al.   SCIENCE

MiR-92b and miR-9/9* Are Specifically Expressed in Brain Primary Tumors and Can Be Used to Differentiate Primary from Metastatic Brain Tumors

(2008) Dvora Nass et al.   BRAIN PATHOLOGY

New approach reveals CD28 and IFNG gene interaction in the susceptibility to cervical cancer

(2008) Valeska B. Guzman et al.   HUMAN MOLECULAR GENETICS

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

A Tissue Biomarker Panel Predicting Systemic Progression after PSA Recurrence Post-Definitive Prostate Cancer Therapy

(2008) Tohru Nakagawa et al.   PLoS One

Epigenetic inactivation of microRNA genehsa-mir-9-1in human breast cancer

(2007) U Lehmann et al.   JOURNAL OF PATHOLOGY