Identification of evolutionarily conserved gene networks mediating neurodegenerative dementia

Shared molecular neuropathology across major psychiatric disorders parallels polygenic overlap

(2018) Michael J. Gandal et al.   SCIENCE

A Multi-network Approach Identifies Protein-Specific Co-expression in Asymptomatic and Symptomatic Alzheimer’s Disease

(2017) Nicholas T. Seyfried et al.   Cell Systems

Catastrophic cliffs: a partial suggestion for selective vulnerability in neurodegenerative diseases

(2016) John Hardy   BIOCHEMICAL SOCIETY TRANSACTIONS

Progranulin Deficiency Promotes Circuit-Specific Synaptic Pruning by Microglia via Complement Activation

(2016) Hansen Lui et al.   CELL

Expression of A152T human tau causes age‐dependent neuronal dysfunction and loss in transgenic mice

(2016) Sumihiro Maeda et al.   EMBO REPORTS

Genome-wide changes in lncRNA, splicing and regional gene expression patterns in autism

(2016) Neelroop N. Parikshak et al.   NATURE

Gene expression elucidates functional impact of polygenic risk for schizophrenia

(2016) Menachem Fromer et al.   NATURE NEUROSCIENCE

Molecular Genetics of Neurodegenerative Dementias

(2016) Flora I. Hinz et al.   Cold Spring Harbor Perspectives in Biology

Untangling the brain’s neuroinflammatory and neurodegenerative transcriptional responses

(2016) Karpagam Srinivasan et al.   Nature Communications

MMP-9 and MMP-2 Contribute to Neuronal Cell Death in iPSC Models of Frontotemporal Dementia with MAPT Mutations

(2016) Md Helal U. Biswas et al.   Stem Cell Reports

Human whole genome genotype and transcriptome data for Alzheimer’s and other neurodegenerative diseases

(2016) Mariet Allen et al.   Scientific Data

Convergent genetic and expression data implicate immunity in Alzheimer's disease

(2015) Lesley Jones et al.   Alzheimers & Dementia

Targeting MicroRNAs in Prevention and Treatment of Neurodegenerative Disorders

(2015) Smriti Gupta et al.   DRUG DEVELOPMENT RESEARCH

Distinct brain transcriptome profiles in C9orf72-associated and sporadic ALS

(2015) Mercedes Prudencio et al.   NATURE NEUROSCIENCE

Canonical genetic signatures of the adult human brain

(2015) Michael Hawrylycz et al.   NATURE NEUROSCIENCE

Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders

(2015) Neelroop N. Parikshak et al.   NATURE REVIEWS GENETICS

Tau and neurodegenerative disease: the story so far

(2015) Khalid Iqbal et al.   Nature Reviews Neurology

Pathological Tau Disrupts Ongoing Network Activity

(2015) Noa Menkes-Caspi et al.   NEURON

Invited review: Neuropathology of tauopathies: principles and practice

(2015) G. G. Kovacs   NEUROPATHOLOGY AND APPLIED NEUROBIOLOGY

A Genome-wide Gene-Expression Analysis and Database in Transgenic Mice during Development of Amyloid or Tau Pathology

(2015) Mar Matarin et al.   Cell Reports

Morris Water Maze Test: Optimization for Mouse Strain and Testing Environment

(2015) Daniel S. Weitzner et al.   Jove-Journal of Visualized Experiments

Alzheimer's disease

(2015) Colin L. Masters et al.   Nature Reviews Disease Primers

Frontotemporal dementia: a bridge between dementia and neuromuscular disease

(2014) Adeline S.L. Ng et al.   Annals of the New York Academy of Sciences

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

(2014) S. Anders et al.   BIOINFORMATICS

Malt1 protease inactivation efficiently dampens immune responses but causes spontaneous autoimmunity

(2014) Maike Jaworski et al.   EMBO JOURNAL

An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex

(2014) Y. Zhang et al.   JOURNAL OF NEUROSCIENCE

Frontotemporal dementia and its subtypes: a genome-wide association study

(2014) Raffaele Ferrari et al.   LANCET NEUROLOGY

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

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

Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases

(2014) M. Narayanan et al.   Molecular Systems Biology

Early-onset cognitive deficits and axonal transport dysfunction in P301S mutant tau transgenic mice

(2014) Tomohiro Onishi et al.   NEUROSCIENCE RESEARCH

A Conserved BDNF, Glutamate- and GABA-Enriched Gene Module Related to Human Depression Identified by Coexpression Meta-Analysis and DNA Variant Genome-Wide Association Studies

(2014) Lun-Ching Chang et al.   PLoS One

Tau Overexpression Impacts a Neuroinflammation Gene Expression Network Perturbed in Alzheimer’s Disease

(2014) Paul D. Wes et al.   PLoS One

Using mice to model Alzheimer's dementia: an overview of the clinical disease and the preclinical behavioral changes in 10 mouse models

(2014) Scott J. Webster et al.   Frontiers in Genetics

Integrative Functional Genomic Analyses Implicate Specific Molecular Pathways and Circuits in Autism

(2013) Neelroop N. Parikshak et al.   CELL

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

(2013) Bin Zhang et al.   CELL

Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögren's syndrome

(2013) Christopher J Lessard et al.   NATURE GENETICS

Meta-analysis of 74,046 individuals identifies 11 new susceptibility loci for Alzheimer's disease

(2013) Jean-Charles Lambert et al.   NATURE GENETICS

Treatment of HCV Infection by Targeting MicroRNA

(2013) Harry L.A. Janssen et al.   NEW ENGLAND JOURNAL OF MEDICINE

Animal Models of Alzheimer Disease

(2013) F. M. LaFerla et al.   Cold Spring Harbor Perspectives in Medicine

Alzheimer's therapeutics: Continued clinical failures question the validity of the amyloid hypothesis—but what lies beyond?

(2012) Kevin Mullane et al.   BIOCHEMICAL PHARMACOLOGY

GO-Elite: a flexible solution for pathway and ontology over-representation

(2012) Alexander C. Zambon et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Removing technical variability in RNA-seq data using conditional quantile normalization

(2012) K. D. Hansen et al.   BIOSTATISTICS

Neuroligin-1 induces neurite outgrowth through interaction with neurexin-1β and activation of fibroblast growth factor receptor-1

(2012) Michelle D. Gjørlund et al.   FASEB JOURNAL

Long-term, efficient inhibition of microRNA function in mice using rAAV vectors

(2012) Jun Xie et al.   NATURE METHODS

Induced Pluripotent Stem Cell Models of Progranulin-Deficient Frontotemporal Dementia Uncover Specific Reversible Neuronal Defects

(2012) Sandra Almeida et al.   Cell Reports

GC-Content Normalization for RNA-Seq Data

(2011) Davide Risso et al.   BMC BIOINFORMATICS

The Human Brain in a Dish: The Promise of iPSC-Derived Neurons

(2011) Ricardo Dolmetsch et al.   CELL

Transcriptomic analysis of autistic brain reveals convergent molecular pathology

(2011) Irina Voineagu et al.   NATURE

Identification of common variants influencing risk of the tauopathy progressive supranuclear palsy

(2011) Günter U Höglinger et al.   NATURE GENETICS

Population-specific expression analysis (PSEA) reveals molecular changes in diseased brain

(2011) Alexandre Kuhn et al.   NATURE METHODS

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

(2011) Marc R. Friedländer et al.   NUCLEIC ACIDS RESEARCH

Is My Network Module Preserved and Reproducible?

(2011) Peter Langfelder et al.   PLoS Computational Biology

Proteins Encoded in Genomic Regions Associated with Immune-Mediated Disease Physically Interact and Suggest Underlying Biology

(2011) Elizabeth J. Rossin et al.   PLoS Genetics

Small Molecule Modifiers of MicroRNA miR-122 Function for the Treatment of Hepatitis C Virus Infection and Hepatocellular Carcinoma

(2010) Douglas D. Young et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways

(2010) Jeremy A. Miller et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS