Networks Inferred from Biochemical Data Reveal Profound Differences in Toll-like Receptor and Inflammatory Signaling between Normal and Transformed Hepatocytes

Toward the dynamic interactome: it's about time

(2010) T. M. Przytycka et al.   BRIEFINGS IN BIOINFORMATICS

Integrated Genomic Analysis Identifies Clinically Relevant Subtypes of Glioblastoma Characterized by Abnormalities in PDGFRA, IDH1, EGFR, and NF1

(2010) Roel G.W. Verhaak et al.   CANCER CELL

Systems analysis of EGF receptor signaling dynamics with microwestern arrays

(2010) Mark F Ciaccio et al.   NATURE METHODS

Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges

(2010) Robert J. Prill et al.   PLoS One

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

A Physical and Regulatory Map of Host-Influenza Interactions Reveals Pathways in H1N1 Infection

(2009) Sagi D. Shapira et al.   CELL

Hepatitis C Virus Infection Reduces Hepatocellular Polarity in a Vascular Endothelial Growth Factor–Dependent Manner

(2009) Christopher J. Mee et al.   GASTROENTEROLOGY

An Integrated Systems Analysis Implicates EGR1 Downregulation in Simian Immunodeficiency Virus Encephalitis-Induced Neural Dysfunction

(2009) M. Gersten et al.   JOURNAL OF NEUROSCIENCE

Tissue specificity and the human protein interaction network

(2009) Alice Bossi et al.   Molecular Systems Biology

Pathway databases and tools for their exploitation: benefits, current limitations and challenges

(2009) Anna Bauer-Mehren et al.   Molecular Systems Biology

Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

(2009) Julio Saez-Rodriguez et al.   Molecular Systems Biology

A comprehensive catalogue of somatic mutations from a human cancer genome

(2009) Erin D. Pleasance et al.   NATURE

The transcriptional network for mesenchymal transformation of brain tumours

(2009) Maria Stella Carro et al.   NATURE

Dynamic modularity in protein interaction networks predicts breast cancer outcome

(2009) Ian W Taylor et al.   NATURE BIOTECHNOLOGY

Applying mass spectrometry-based proteomics to genetics, genomics and network biology

(2009) Matthias Gstaiger et al.   NATURE REVIEWS GENETICS

Identifying the proteins to which small-molecule probes and drugs bind in cells

(2009) S.-E. Ong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reverse-phase protein arrays for application-orientated cancer research

(2009) Ulrike Korf et al.   Proteomics Clinical Applications

Cell-Specific Information Processing in Segregating Populations of Eph Receptor Ephrin-Expressing Cells

(2009) C. Jorgensen et al.   SCIENCE

Unbiased Reconstruction of a Mammalian Transcriptional Network Mediating Pathogen Responses

(2009) I. Amit et al.   SCIENCE

Flexible informatics for linking experimental data to mathematical models via DataRail

(2008) Julio Saez-Rodriguez et al.   BIOINFORMATICS

Protein and lysate array technologies in cancer research

(2008) Brett Spurrier et al.   BIOTECHNOLOGY ADVANCES

Functional proteomic profiling of AML predicts response and survival

(2008) S. M. Kornblau et al.   BLOOD

Wnt Signaling in Liver Cancer

(2008) Yutaka Takigawa et al.   CURRENT DRUG TARGETS

An inducible autocrine cascade regulates rat hepatocyte proliferation and apoptosis responses to tumor necrosis factor-α

(2008) Benjamin D. Cosgrove et al.   HEPATOLOGY

Toll‐like receptors and adaptor molecules in liver disease: Update

(2008) Ekihiro Seki et al.   HEPATOLOGY

A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas

(2008) Kartik M Mani et al.   Molecular Systems Biology

Targeting and tinkering with interaction networks

(2008) Robert B Russell et al.   Nature Chemical Biology

Literature-curated protein interaction datasets

(2008) Michael E Cusick et al.   NATURE METHODS

Protein networking: insights into global functional organization of proteomes

(2008) Enrico Pieroni et al.   PROTEOMICS

Tracing pathway activities with kinase inhibitors and reverse phase protein arrays

(2008) Jan van Oostrum et al.   Proteomics Clinical Applications

Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast

(2008) A. Roguev et al.   SCIENCE