Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma

Guilt by rewiring: gene prioritization through network rewiring in Genome Wide Association Studies

(2014) L. Hou et al.   HUMAN MOLECULAR GENETICS

Periostin accelerates human malignant melanoma progression by modifying the melanoma microenvironment

(2014) Yorihisa Kotobuki et al.   Pigment Cell & Melanoma Research

Loss of Connectivity in Cancer Co-Expression Networks

(2014) Roberto Anglani et al.   PLoS One

powerlaw: A Python Package for Analysis of Heavy-Tailed Distributions

(2014) Jeff Alstott et al.   PLoS One

Integrated Pathway Clusters with Coherent Biological Themes for Target Prioritisation

(2014) Yi-An Chen et al.   PLoS One

virtualArray: a R/bioconductor package to merge raw data from different microarray platforms

(2013) Andreas Heider et al.   BMC BIOINFORMATICS

Coexpression analysis of large cancer datasets provides insight into the cellular phenotypes of the tumour microenvironment

(2013) Tamasin N Doig et al.   BMC GENOMICS

The Role of Polo-like Kinase 1 in Carcinogenesis: Cause or Consequence?

(2013) B. D. Cholewa et al.   CANCER RESEARCH

Activity of the Monocarboxylate Transporter 1 Inhibitor AZD3965 in Small Cell Lung Cancer

(2013) R. Polanski et al.   CLINICAL CANCER RESEARCH

Beyond modules and hubs: the potential of gene coexpression networks for investigating molecular mechanisms of complex brain disorders

(2013) C. Gaiteri et al.   GENES BRAIN AND BEHAVIOR

New drug targets in metastatic melanoma

(2013) Blanca Homet et al.   JOURNAL OF PATHOLOGY

DGIdb: mining the druggable genome

(2013) Malachi Griffith et al.   NATURE METHODS

Activities at the Universal Protein Resource (UniProt)

(2013)   NUCLEIC ACIDS RESEARCH

The Reactome pathway knowledgebase

(2013) David Croft et al.   NUCLEIC ACIDS RESEARCH

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

CTGF is a therapeutic target for metastatic melanoma

(2013) E C Finger et al.   ONCOGENE

A new 12-gene diagnostic biomarker signature of melanoma revealed by integrated microarray analysis

(2013) Wanting Liu et al.   PeerJ

MelanomaDB: A Web Tool for Integrative Analysis of Melanoma Genomic Information to Identify Disease-Associated Molecular Pathways

(2013) Alexander J. Trevarton et al.   Frontiers in Oncology

In silico identification of oncogenic potential of fyn-related kinase in hepatocellular carcinoma

(2012) Jia-Shing Chen et al.   BIOINFORMATICS

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

MAGE-A antigens as targets in tumour therapy

(2012) David W. Meek et al.   CANCER LETTERS

Differential network biology

(2012) Trey Ideker et al.   Molecular Systems Biology

TSGene: a web resource for tumor suppressor genes

(2012) Min Zhao et al.   NUCLEIC ACIDS RESEARCH

Cell Cycle Gene Networks Are Associated with Melanoma Prognosis

(2012) Li Wang et al.   PLoS One

Evaluation of Gene Association Methods for Coexpression Network Construction and Biological Knowledge Discovery

(2012) Sapna Kumari et al.   PLoS One

Human diseases through the lens of network biology

(2012) Laura I. Furlong   TRENDS IN GENETICS

Quantifying differential gene connectivity between disease states for objective identification of disease-relevant genes

(2011) Jen-hwa Chu et al.   BMC Systems Biology

TargetMine, an Integrated Data Warehouse for Candidate Gene Prioritisation and Target Discovery

(2011) Yi-An Chen et al.   PLoS One

Measuring the Evolutionary Rewiring of Biological Networks

(2011) Chong Shou et al.   PLoS Computational Biology

Cytoscape Web: an interactive web-based network browser

(2010) Christian T. Lopes et al.   BIOINFORMATICS

Gene signature of the metastatic potential of cutaneous melanoma: too much for too little?

(2010) József Tímár et al.   CLINICAL & EXPERIMENTAL METASTASIS

CancerResource: a comprehensive database of cancer-relevant proteins and compound interactions supported by experimental knowledge

(2010) Jessica Ahmed et al.   NUCLEIC ACIDS RESEARCH

How to Understand the Cell by Breaking It: Network Analysis of Gene Perturbation Screens

(2010) Florian Markowetz   PLoS Computational Biology

Importing ArrayExpress datasets into R/Bioconductor

(2009) Audrey Kauffmann et al.   BIOINFORMATICS

Cancer systems biology: a network modeling perspective

(2009) P. K. Kreeger et al.   CARCINOGENESIS

A Differential Wiring Analysis of Expression Data Correctly Identifies the Gene Containing the Causal Mutation

(2009) Nicholas J. Hudson et al.   PLoS Computational Biology

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

The Interleukin-8 Pathway in Cancer

(2008) D. J.J. Waugh et al.   CLINICAL CANCER RESEARCH

PID: the Pathway Interaction Database

(2008) Carl F. Schaefer et al.   NUCLEIC ACIDS RESEARCH

Modeling Cancer Progression via Pathway Dependencies

(2008) Elena J. Edelman et al.   PLoS Computational Biology

Network properties of genes harboring inherited disease mutations

(2008) I. Feldman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA