Modeling dynamic functional relationship networks and application to ex vivo human erythroid differentiation

Developmental transcriptome analysis of human erythropoiesis

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

Biased, Non-equivalent Gene-Proximal and -Distal Binding Motifs of Orphan Nuclear Receptor TR4 in Primary Human Erythroid Cells

(2014) Lihong Shi et al.   PLoS Genetics

Identification of Stage-Specific Genes Associated With Lupus Nephritis and Response to Remission Induction in (NZB × NZW)F1 and NZM2410 Mice

(2014) Ramalingam Bethunaickan et al.   Arthritis & Rheumatology

Oxysterol-binding proteins: Functions in cell regulation beyond lipid metabolism

(2013) Marion Weber-Boyvat et al.   BIOCHEMICAL PHARMACOLOGY

Lysine-specific demethylase 1 is a therapeutic target for fetal hemoglobin induction

(2013) Lihong Shi et al.   NATURE MEDICINE

Prediction and Validation of Gene-Disease Associations Using Methods Inspired by Social Network Analyses

(2013) U. Martin Singh-Blom et al.   PLoS One

A Deep Intronic Mutation in the Ankyrin-1 Gene Causes Diminished Protein Expression Resulting in Hemolytic Anemia in Mice

(2013) Hua Huang et al.   G3-Genes Genomes Genetics

Functional Knowledge Transfer for High-accuracy Prediction of Under-studied Biological Processes

(2013) Christopher Y. Park et al.   PLoS Computational Biology

IMP: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks

(2012) Aaron K. Wong et al.   NUCLEIC ACIDS RESEARCH

Tissue-Specific Functional Networks for Prioritizing Phenotype and Disease Genes

(2012) Yuanfang Guan et al.   PLoS Computational Biology

Rewiring of PDZ Domain-Ligand Interaction Network Contributed to Eukaryotic Evolution

(2012) Jinho Kim et al.   PLoS Genetics

Novel Loci for Metabolic Networks and Multi-Tissue Expression Studies Reveal Genes for Atherosclerosis

(2012) Michael Inouye et al.   PLoS Genetics

Identification of HIF2  as an important STAT5 target gene in human hematopoietic stem cells

(2011) S. Fatrai et al.   BLOOD

Integrated functional networks of process, tissue, and developmental stage specific interactions in Arabidopsis thaliana

(2011) Ana Pop et al.   BMC Systems Biology

Genome-wide Analysis of Simultaneous GATA1/2, RUNX1, FLI1, and SCL Binding in Megakaryocytes Identifies Hematopoietic Regulators

(2011) Marloes R. Tijssen et al.   DEVELOPMENTAL CELL

Prioritizing candidate disease genes by network-based boosting of genome-wide association data

(2011) I. Lee et al.   GENOME RESEARCH

The IntAct molecular interaction database in 2012

(2011) S. Kerrien et al.   NUCLEIC ACIDS RESEARCH

A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells

(2010) M. R. Tallack et al.   GENOME RESEARCH

The BioGRID Interaction Database: 2011 update

(2010) C. Stark et al.   NUCLEIC ACIDS RESEARCH

Rewiring of Genetic Networks in Response to DNA Damage

(2010) S. Bandyopadhyay et al.   SCIENCE

Functional Genomics Complements Quantitative Genetics in Identifying Disease-Gene Associations

(2010) Yuanfang Guan et al.   PLoS Computational Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Exploring the human genome with functional maps

(2009) C. Huttenhower et al.   GENOME RESEARCH

OSBP-related protein 2 is a sterol receptor on lipid droplets that regulates the metabolism of neutral lipids

(2009) Riikka Hynynen et al.   JOURNAL OF LIPID RESEARCH

MINT, the molecular interaction database: 2009 update

(2009) Arnaud Ceol et al.   NUCLEIC ACIDS RESEARCH

Global Prediction of Tissue-Specific Gene Expression and Context-Dependent Gene Networks in Caenorhabditis elegans

(2009) Maria D. Chikina et al.   PLoS Computational Biology

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Genetics of gene expression and its effect on disease

(2008) Valur Emilsson et al.   NATURE

A single gene network accurately predicts phenotypic effects of gene perturbation in Caenorhabditis elegans

(2008) Insuk Lee et al.   NATURE GENETICS

A Genomewide Functional Network for the Laboratory Mouse

(2008) Yuanfang Guan et al.   PLoS Computational Biology

A critical assessment of Mus musculus gene function prediction using integrated genomic evidence

(2008) Lourdes Peña-Castillo et al.   GENOME BIOLOGY