Integrative genomics approach identifies conserved transcriptomic networks in Alzheimer’s disease

Novel Alzheimer risk genes determine the microglia response to amyloid‐β but not to TAU pathology

(2020) Annerieke Sierksma et al.   EMBO Molecular Medicine

Large-scale proteomic analysis of Alzheimer’s disease brain and cerebrospinal fluid reveals early changes in energy metabolism associated with microglia and astrocyte activation

(2020) Erik C. B. Johnson et al.   NATURE MEDICINE

Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer’s disease risk

(2019) Iris E. Jansen et al.   NATURE GENETICS

Fast interpolation-based t-SNE for improved visualization of single-cell RNA-seq data

(2019) George C. Linderman et al.   NATURE METHODS

Identification of common genetic risk variants for autism spectrum disorder

(2019) Jakob Grove et al.   NATURE GENETICS

Genetic meta-analysis of diagnosed Alzheimer’s disease identifies new risk loci and implicates Aβ, tau, immunity and lipid processing

(2019) Brian W. Kunkle et al.   NATURE GENETICS

Single-cell transcriptomic analysis of Alzheimer’s disease

(2019) Hansruedi Mathys et al.   NATURE

Molecular Control of Oligodendrocyte Development

(2019) Benayahu Elbaz et al.   TRENDS IN NEUROSCIENCES

Aβ oligomers promote oligodendrocyte differentiation and maturation via integrin β1 and Fyn kinase signaling

(2019) Tania Quintela-López et al.   Cell Death & Disease

Effect of AZD0530 on Cerebral Metabolic Decline in Alzheimer Disease

(2019) Christopher H. van Dyck et al.   JAMA Neurology

Fragmented mitochondria released from microglia trigger A1 astrocytic response and propagate inflammatory neurodegeneration

(2019) Amit U. Joshi et al.   NATURE NEUROSCIENCE

Conserved brain myelination networks are altered in Alzheimer's and other neurodegenerative diseases

(2018) Mariet Allen et al.   Alzheimers & Dementia

diceR: an R package for class discovery using an ensemble driven approach

(2018) Derek S. Chiu et al.   BMC BIOINFORMATICS

Histone Deacetylases 1 and 2 Regulate Microglia Function during Development, Homeostasis, and Neurodegeneration in a Context-Dependent Manner

(2018) Moumita Datta et al.   IMMUNITY

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Common schizophrenia alleles are enriched in mutation-intolerant genes and in regions under strong background selection

(2018) Antonio F. Pardiñas et al.   NATURE GENETICS

A molecular network of the aging human brain provides insights into the pathology and cognitive decline of Alzheimer’s disease

(2018) Sara Mostafavi et al.   NATURE NEUROSCIENCE

Association between Alzheimer’s disease pathogenesis and early demyelination and oligodendrocyte dysfunction

(2018) Xiao-Hong Sun et al.   Neural Regeneration Research

White matter changes in Alzheimer’s disease: a focus on myelin and oligodendrocytes

(2018) Sara E. Nasrabady et al.   Acta Neuropathologica Communications

White matter diffusion alterations precede symptom onset in autosomal dominant Alzheimer’s disease

(2018) Miguel Ángel Araque Caballero et al.   BRAIN

Integrative transcriptome analyses of the aging brain implicate altered splicing in Alzheimer’s disease susceptibility

(2018) Towfique Raj et al.   NATURE GENETICS

Withaferin A Suppresses Beta Amyloid in APP Expressing Cells: Studies for Tat and Cocaine Associated Neurological Dysfunctions

(2018) Sneham Tiwari et al.   Frontiers in Aging Neuroscience

The Mount Sinai cohort of large-scale genomic, transcriptomic and proteomic data in Alzheimer's disease

(2018) Minghui Wang et al.   Scientific Data

A multi-omic atlas of the human frontal cortex for aging and Alzheimer’s disease research

(2018) Philip L. De Jager et al.   Scientific Data

Identification of evolutionarily conserved gene networks mediating neurodegenerative dementia

(2018) Vivek Swarup et al.   NATURE MEDICINE

Epigenome-wide study uncovers large-scale changes in histone acetylation driven by tau pathology in aging and Alzheimer’s human brains

(2018) Hans-Ulrich Klein et al.   NATURE NEUROSCIENCE

Origin and dynamics of oligodendrocytes in the developing brain: Implications for perinatal white matter injury

(2017) Erik van Tilborg et al.   GLIA

Resveratrol regulates neuro-inflammation and induces adaptive immunity in Alzheimer’s disease

(2017) Charbel Moussa et al.   Journal of Neuroinflammation

Neurotoxic reactive astrocytes are induced by activated microglia

(2017) Shane A. Liddelow et al.   NATURE

Genome-wide association analysis of insomnia complaints identifies risk genes and genetic overlap with psychiatric and metabolic traits

(2017) Anke R Hammerschlag et al.   NATURE GENETICS

Polygenic transmission disequilibrium confirms that common and rare variation act additively to create risk for autism spectrum disorders

(2017) Daniel J Weiner et al.   NATURE GENETICS

A meta-analysis of genome-wide association studies identifies 17 new Parkinson's disease risk loci

(2017) Diana Chang et al.   NATURE GENETICS

Massively parallel single-nucleus RNA-seq with DroNc-seq

(2017) Naomi Habib et al.   NATURE METHODS

A common haplotype lowers PU.1 expression in myeloid cells and delays onset of Alzheimer's disease

(2017) Kuan-lin Huang et al.   NATURE NEUROSCIENCE

Genome-wide association study identifies MAPT locus influencing human plasma tau levels

(2017) Jason Chen et al.   NEUROLOGY

Novel genetic loci associated with hippocampal volume

(2017) Derrek P. Hibar et al.   Nature Communications

Major Shifts in Glial Regional Identity Are a Transcriptional Hallmark of Human Brain Aging

(2017) Lilach Soreq et al.   Cell Reports

Meta-analysis of GWAS of over 16,000 individuals with autism spectrum disorder highlights a novel locus at 10q24.32 and a significant overlap with schizophrenia

(2017)   Molecular Autism

Accelerating Medicines Partnership: Alzheimer’s Disease (AMP-AD) Knowledge Portal Aids Alzheimer’s Drug Discovery through Open Data Sharing

(2016) Richard J. Hodes et al.   EXPERT OPINION ON THERAPEUTIC TARGETS

Intracerebral GM-CSF contributes to transendothelial monocyte migration in APP/PS1 Alzheimer’s disease mice

(2016) De S Shang et al.   JOURNAL OF CEREBRAL BLOOD FLOW AND METABOLISM

Genetic-risk assessment of GWAS-derived susceptibility loci for type 2 diabetes in a 10 year follow-up of a population-based cohort study

(2016) Min Jin Go et al.   JOURNAL OF HUMAN GENETICS

A Genome-Wide Association Meta-Analysis of Attention-Deficit/Hyperactivity Disorder Symptoms in Population-Based Pediatric Cohorts

(2016) Christel M. Middeldorp et al.   JOURNAL OF THE AMERICAN ACADEMY OF CHILD AND ADOLESCENT PSYCHIATRY

Evidence for three genetic loci involved in both anorexia nervosa risk and variation of body mass index

(2016) A Hinney et al.   MOLECULAR PSYCHIATRY

Meta-analysis of genome-wide association studies of anxiety disorders

(2016) T Otowa et al.   MOLECULAR PSYCHIATRY

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

(2016) Neelroop N. Parikshak et al.   NATURE

Genome-wide association study identifies 74 loci associated with educational attainment

(2016) Aysu Okbay et al.   NATURE

Genetic variants associated with subjective well-being, depressive symptoms and neuroticism identified through genome-wide analyses

(2016) Aysu Okbay et al.   NATURE GENETICS

Genome-wide association analyses identify new risk variants and the genetic architecture of amyotrophic lateral sclerosis

(2016) Wouter van Rheenen et al.   NATURE GENETICS

Integrative approaches for large-scale transcriptome-wide association studies

(2016) Alexander Gusev et al.   NATURE GENETICS

Genetic variants in Alzheimer disease — molecular and brain network approaches

(2016) Chris Gaiteri et al.   Nature Reviews Neurology

A Systems-Level Analysis of the Peripheral Nerve Intrinsic Axonal Growth Program

(2016) Vijayendran Chandran et al.   NEURON

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain

(2016) B. B. Lake et al.   SCIENCE

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

(2016) Mariet Allen et al.   Scientific Data

Novel multiple sclerosis susceptibility loci implicated in epigenetic regulation

(2016) T. F. M. Andlauer et al.   Science Advances

A genome-wide approach to children's aggressive behavior:The EAGLE consortium

(2015) Irene Pappa et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

Emerging Concepts in Alzheimer's Disease

(2015) Harry V. Vinters   Annual Review of Pathology-Mechanisms of Disease

Oligodendrocytes and Alzheimer's disease

(2015) Zhiyou Cai et al.   INTERNATIONAL JOURNAL OF NEUROSCIENCE

The JAK/STAT3 Pathway Is a Common Inducer of Astrocyte Reactivity in Alzheimer's and Huntington's Diseases

(2015) L. Ben Haim et al.   JOURNAL OF NEUROSCIENCE

Genetic overlap between Alzheimer’s disease and Parkinson’s disease at the MAPT locus

(2015) R S Desikan et al.   MOLECULAR PSYCHIATRY

Common genetic variants influence human subcortical brain structures

(2015) Derrek P. Hibar et al.   NATURE

Sparse whole-genome sequencing identifies two loci for major depressive disorder

(2015) Na Cai et al.   NATURE

Whole‐genome sequencing identifies EN1 as a determinant of bone density and fracture

(2015) Hou‐Feng Zheng et al.   NATURE

Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations

(2015) Jimmy Z Liu et al.   NATURE GENETICS

Robust enumeration of cell subsets from tissue expression profiles

(2015) Aaron M Newman et al.   NATURE METHODS

Psychiatric genome-wide association study analyses implicate neuronal, immune and histone pathways

(2015)   NATURE NEUROSCIENCE

Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders

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

A survey of human brain transcriptome diversity at the single cell level

(2015) Spyros Darmanis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of TGFβ signaling in the pathogenesis of Alzheimer’s disease

(2015) Rommy von Bernhardi et al.   Frontiers in Cellular Neuroscience

microRNAs as Developmental Regulators

(2015) Kathryn N. Ivey et al.   Cold Spring Harbor Perspectives in Biology

Astrocytes in Neurodegenerative Disease: Table 1.

(2015) Hemali Phatnani et al.   Cold Spring Harbor Perspectives in Biology

Transcriptional and Epigenetic Regulation of Oligodendrocyte Development and Myelination in the Central Nervous System

(2015) Ben Emery et al.   Cold Spring Harbor Perspectives in Biology

Multiscale Embedded Gene Co-expression Network Analysis

(2015) Won-Min Song et al.   PLoS Computational Biology

MAGMA: Generalized Gene-Set Analysis of GWAS Data

(2015) Christiaan A. de Leeuw et al.   PLoS Computational Biology

Genome-Wide Analysis of Attention Deficit Hyperactivity Disorder in Norway

(2015) Tetyana Zayats et al.   PLoS One

Withaferin A inhibits NF-kappaB activation by targeting cysteine 179 in IKKβ

(2014) Karen Heyninck et al.   BIOCHEMICAL PHARMACOLOGY

A Genome-wide Association Meta-analysis of Preschool Internalizing Problems

(2014) Kelly S. Benke et al.   JOURNAL OF THE AMERICAN ACADEMY OF CHILD AND ADOLESCENT PSYCHIATRY

Genetic determinants of common epilepsies: a meta-analysis of genome-wide association studies

(2014)   LANCET NEUROLOGY

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

(2014) Raffaele Ferrari et al.   LANCET NEUROLOGY

Biological insights from 108 schizophrenia-associated genetic loci

(2014)   NATURE

Defining the role of common variation in the genomic and biological architecture of adult human height

(2014) Andrew R Wood et al.   NATURE GENETICS

Methylomic profiling implicates cortical deregulation of ANK1 in Alzheimer's disease

(2014) Katie Lunnon et al.   NATURE NEUROSCIENCE

Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci

(2014) Philip L De Jager et al.   NATURE NEUROSCIENCE

Results of a “GWAS Plus:” General Cognitive Ability Is Substantially Heritable and Massively Polygenic

(2014) Robert M. Kirkpatrick et al.   PLoS One

Genome-wide association study reveals two new risk loci for bipolar disorder

(2014) Thomas W. Mühleisen et al.   Nature Communications

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

Histone deacetylase inhibitors suppress immune activation in primary mouse microglia

(2013) Vishnu Kannan et al.   JOURNAL OF NEUROSCIENCE RESEARCH

Genetic relationship between five psychiatric disorders estimated from genome-wide SNPs

(2013) S Hong Lee et al.   NATURE GENETICS

Discovery and refinement of loci associated with lipid levels

(2013) Cristen J Willer 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

Alzheimer's disease susceptibility variants in the MS4A6A gene are associated with altered levels of MS4A6A expression in blood

(2013) Petroula Proitsi et al.   NEUROBIOLOGY OF AGING

Alzheimer’s Disease Risk Gene CD33 Inhibits Microglial Uptake of Amyloid Beta

(2013) Ana Griciuc et al.   NEURON

Altered Social Behaviours in Neurexin 1α Knockout Mice Resemble Core Symptoms in Neurodevelopmental Disorders

(2013) Hannah Mary Grayton et al.   PLoS One

Why size matters – balancing mitochondrial dynamics in Alzheimer's disease

(2013) Brian DuBoff et al.   TRENDS IN NEUROSCIENCES

Polygenic Modeling with Bayesian Sparse Linear Mixed Models

(2013) Xiang Zhou et al.   PLoS Genetics

Large-Scale Cellular-Resolution Gene Profiling in Human Neocortex Reveals Species-Specific Molecular Signatures

(2012) Hongkui Zeng et al.   CELL

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

(2012) J. Wang et al.   GENOME RESEARCH

Neddylation dysfunction in Alzheimer's disease

(2012) Yuzhi Chen et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

A mega-analysis of genome-wide association studies for major depressive disorder

(2012)   MOLECULAR PSYCHIATRY

Age-associated changes in gene expression in human brain and isolated neurons

(2012) Azad Kumar et al.   NEUROBIOLOGY OF AGING

Synaptic genes are extensively downregulated across multiple brain regions in normal human aging and Alzheimer's disease

(2012) Nicole C. Berchtold et al.   NEUROBIOLOGY OF AGING

Sex-Dependent Novelty Response in Neurexin-1α Mutant Mice

(2012) Marijke C. Laarakker et al.   PLoS One

Epigenetic modifications in frontal cortex from Alzheimer's disease and bipolar disorder patients

(2012) J S Rao et al.   Translational Psychiatry

Genome-wide association studies of alcohol intake—a promising cocktail?

(2011) Arpana Agrawal et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Genetic variants in novel pathways influence blood pressure and cardiovascular disease risk

(2011) Georg B. Ehret et al.   NATURE

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

(2011) Günter U Höglinger et al.   NATURE GENETICS

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

Early Oligodendrocyte/Myelin Pathology in Alzheimer's Disease Mice Constitutes a Novel Therapeutic Target

(2010) Maya K. Desai et al.   AMERICAN JOURNAL OF PATHOLOGY

ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments

(2010) Alexander Lachmann et al.   BIOINFORMATICS

DiffCoEx: a simple and sensitive method to find differentially coexpressed gene modules

(2010) Bruno M Tesson et al.   BMC BIOINFORMATICS

Genome-wide meta-analyses identify multiple loci associated with smoking behavior

(2010)   NATURE GENETICS

Early deficits in synaptic mitochondria in an Alzheimer's disease mouse model

(2010) H. Du et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Abundant Quantitative Trait Loci Exist for DNA Methylation and Gene Expression in Human Brain

(2010) J. Raphael Gibbs et al.   PLoS Genetics

Genetic Control of Human Brain Transcript Expression in Alzheimer Disease

(2009) Jennifer A. Webster et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Myelin-mediated inhibition of oligodendrocyte precursor differentiation can be overcome by pharmacological modulation of Fyn-RhoA and protein kinase C signalling

(2009) Alexandra S. Baer et al.   BRAIN

MicroRNA in the immune system, microRNA as an immune system

(2009) Li-Fan Lu et al.   IMMUNOLOGY

Withaferin A inhibits tumor necrosis factor-α-induced expression of cell adhesion molecules by inactivation of Akt and NF-κB in human pulmonary epithelial cells

(2009) Jung Hwa Oh et al.   INTERNATIONAL IMMUNOPHARMACOLOGY

Psoriasis genome-wide association study identifies susceptibility variants within LCE gene cluster at 1q21

(2009) Xue-Jun Zhang et al.   NATURE GENETICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Functional organization of the transcriptome in human brain

(2008) Michael C Oldham et al.   NATURE NEUROSCIENCE