Integrated genomics and proteomics define huntingtin CAG length–dependent networks in mice

Melatonin Lulling Th17 Cells to Sleep

(2015) Jacob S. Lee et al.   CELL

Htt CAG repeat expansion confers pleiotropic gains of mutant huntingtin function in chromatin regulation

(2015) Marta Biagioli et al.   HUMAN MOLECULAR GENETICS

Cell type– and brain region–resolved mouse brain proteome

(2015) Kirti Sharma et al.   NATURE NEUROSCIENCE

N17 Modifies Mutant Huntingtin Nuclear Pathogenesis and Severity of Disease in HD BAC Transgenic Mice

(2015) Xiaofeng Gu et al.   NEURON

FastRFunctions for Robust Correlations and Hierarchical Clustering

(2015) Peter Langfelder et al.   Journal of Statistical Software

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Control of Cell Identity Genes Occurs in Insulated Neighborhoods in Mammalian Chromosomes

(2014) Jill M. Dowen et al.   CELL

Progressive axonal transport and synaptic protein changes correlate with behavioral and neuropathological abnormalities in the heterozygous Q175 KI mouse model of Huntington's disease

(2014) G. A. Smith et al.   HUMAN MOLECULAR GENETICS

Common mechanisms in neurodegeneration and neuroinflammation: a BrainNet Europe gene expression microarray study

(2014) Pascal F. Durrenberger et al.   JOURNAL OF NEURAL TRANSMISSION

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

(2014) Jürgen Cox et al.   MOLECULAR & CELLULAR PROTEOMICS

REST and stress resistance in ageing and Alzheimer’s disease

(2014) Tao Lu et al.   NATURE

Neuronal targets for reducing mutant huntingtin expression to ameliorate disease in a mouse model of Huntington's disease

(2014) Nan Wang et al.   NATURE MEDICINE

Maintenance of postmitotic neuronal cell identity

(2014) Evan S Deneris et al.   NATURE NEUROSCIENCE

Huntington disease: natural history, biomarkers and prospects for therapeutics

(2014) Christopher A. Ross et al.   Nature Reviews Neurology

Developmental Epigenetic Modification Regulates Stochastic Expression of Clustered Protocadherin Genes, Generating Single Neuron Diversity

(2014) Shunsuke Toyoda et al.   NEURON

Cell-type-based model explaining coexpression patterns of genes in the brain

(2014) P. Grange et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Targeting ATM ameliorates mutant Huntingtin toxicity in cell and animal models of Huntington's disease

(2014) X.-H. Lu et al.   Science Translational Medicine

Dysfunction of the CNS-Heart Axis in Mouse Models of Huntington's Disease

(2014) Michal Mielcarek et al.   PLoS Genetics

Integrated Systems Approach Identifies Genetic Nodes and Networks in Late-Onset Alzheimer’s Disease

(2013) Bin Zhang et al.   CELL

Clustered protocadherins

(2013) W. V. Chen et al.   DEVELOPMENT

The Coming Age of Complete, Accurate, and Ubiquitous Proteomes

(2013) Matthias Mann et al.   MOLECULAR CELL

Choosing an animal model for the study of Huntington's disease

(2013) Mahmoud A. Pouladi et al.   NATURE REVIEWS NEUROSCIENCE

The Neuron Identity Problem: Form Meets Function

(2013) Gord Fishell et al.   NEURON

When Is Hub Gene Selection Better than Standard Meta-Analysis?

(2013) Peter Langfelder et al.   PLoS One

Huntington's disease: underlying molecular mechanisms and emerging concepts

(2013) John Labbadia et al.   TRENDS IN BIOCHEMICAL SCIENCES

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Network methods for describing sample relationships in genomic datasets: application to Huntington’s disease

(2012) Michael C Oldham et al.   BMC Systems Biology

Comparative Proteomic Analysis of Eleven Common Cell Lines Reveals Ubiquitous but Varying Expression of Most Proteins

(2012) Tamar Geiger et al.   MOLECULAR & CELLULAR PROTEOMICS

A map of the cis-regulatory sequences in the mouse genome

(2012) Yin Shen et al.   NATURE

Network Organization of the Huntingtin Proteomic Interactome in Mammalian Brain

(2012) Dyna I. Shirasaki et al.   NEURON

Comprehensive Behavioral and Molecular Characterization of a New Knock-In Mouse Model of Huntington’s Disease: zQ175

(2012) Liliana B. Menalled et al.   PLoS One

Role of CCCTC binding factor (CTCF) and cohesin in the generation of single-cell diversity of Protocadherin-  gene expression

(2012) K. Monahan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CTCF/cohesin-mediated DNA looping is required for protocadherin   promoter choice

(2012) Y. Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Strategies for aggregating gene expression data: The collapseRows R function

(2011) Jeremy A Miller et al.   BMC BIOINFORMATICS

Longitudinal analysis of gene expression and behaviour in the HdhQ150 mouse model of Huntington's disease

(2011) Peter Giles et al.   BRAIN RESEARCH BULLETIN

HD CAG-correlated gene expression changes support a simple dominant gain of function

(2011) Jessie C. Jacobsen et al.   HUMAN MOLECULAR GENETICS

Optimally weighted Z-test is a powerful method for combining probabilities in meta-analysis

(2011) D. V. ZAYKIN   JOURNAL OF EVOLUTIONARY BIOLOGY

Reversed-phase chromatography with multiple fraction concatenation strategy for proteome profiling of human MCF10A cells

(2011) Yuexi Wang et al.   PROTEOMICS

Transcriptional changes in Huntington disease identified using genome-wide expression profiling and cross-platform analysis

(2010) K. Becanovic et al.   HUMAN MOLECULAR GENETICS

CTCF: Master Weaver of the Genome

(2009) Jennifer E. Phillips et al.   CELL

A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics

(2009) Jürgen Cox et al.   Nature Protocols

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

A Translational Profiling Approach for the Molecular Characterization of CNS Cell Types

(2008) Myriam Heiman et al.   CELL

Geometric Interpretation of Gene Coexpression Network Analysis

(2008) Steve Horvath et al.   PLoS Computational Biology