The interplay between host genetics and the gut microbiome reveals common and distinct microbiome features for complex human diseases

Host and Microbiome Genome-Wide Association Studies: Current State and Challenges

(2019) Denis Awany et al.   Frontiers in Genetics

Identification of 28 new susceptibility loci for type 2 diabetes in the Japanese population

(2019) Ken Suzuki et al.   NATURE GENETICS

Saccharibacteria (TM7) in the Human Oral Microbiome

(2019) B. Bor et al.   JOURNAL OF DENTAL RESEARCH

The evolution of the use of faecal microbiota transplantation and emerging therapeutic indications

(2019) Jessica R Allegretti et al.   LANCET

Gut microbiota in colorectal cancer: mechanisms of action and clinical applications

(2019) Sunny H. Wong et al.   Nature Reviews Gastroenterology & Hepatology

Toward understanding the origin and evolution of cellular organisms

(2019) Minoru Kanehisa   PROTEIN SCIENCE

Microbiomes as sources of emergent host phenotypes

(2019) J. B. Lynch et al.   SCIENCE

Genotype-by-environment interactions inferred from genetic effects on phenotypic variability in the UK Biobank

(2019) Huanwei Wang et al.   Science Advances

Linking Atrial Fibrillation with Alzheimer’s Disease: Epidemiological, Pathological, and Mechanistic Evidence

(2018) Masafumi Ihara et al.   JOURNAL OF ALZHEIMERS DISEASE

Detection of widespread horizontal pleiotropy in causal relationships inferred from Mendelian randomization between complex traits and diseases

(2018) Marie Verbanck et al.   NATURE GENETICS

Genetic analysis of quantitative traits in the Japanese population links cell types to complex human diseases

(2018) Masahiro Kanai et al.   NATURE GENETICS

Identification of genetic risk factors in the Chinese population implicates a role of immune system in Alzheimer’s disease pathogenesis

(2018) Xiaopu Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gut microbiota associations with common diseases and prescription medications in a population-based cohort

(2018) Matthew A. Jackson et al.   Nature Communications

Reading Mendelian randomisation studies: a guide, glossary, and checklist for clinicians

(2018) Neil M Davies et al.   BMJ-British Medical Journal

Reading Mendelian randomisation studies: a guide, glossary, and checklist for clinicians

(2018) Neil M Davies et al.   BMJ-British Medical Journal

Assessment of Atrial Conduction Times in Patients with Newly Diagnosed Parkinson’s Disease

(2018) Yiğit Çanga et al.   Parkinsons Disease

Environment dominates over host genetics in shaping human gut microbiota

(2018) Daphna Rothschild et al.   NATURE

Regional variation limits applications of healthy gut microbiome reference ranges and disease models

(2018) Yan He et al.   NATURE MEDICINE

Atrial Fibrillation and Risk of Cancer: A Danish Population‐Based Cohort Study

(2018) Nicklas Vinter et al.   Journal of the American Heart Association

Causal Relationship between Diet-Induced Gut Microbiota Changes and Diabetes: A Novel Strategy to Transplant Faecalibacterium prausnitzii in Preventing Diabetes

(2018) Kumar Ganesan et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

New approach for understanding genome variations in KEGG

(2018) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Interpreting findings from Mendelian randomization using the MR-Egger method

(2017) Stephen Burgess et al.   EUROPEAN JOURNAL OF EPIDEMIOLOGY

Identification of six new genetic loci associated with atrial fibrillation in the Japanese population

(2017) Siew-Kee Low et al.   NATURE GENETICS

Genome-wide association study identifies 112 new loci for body mass index in the Japanese population

(2017) Masato Akiyama et al.   NATURE GENETICS

Association between Parkinson's disease and risk of colorectal cancer

(2017) Xin Xie et al.   PARKINSONISM & RELATED DISORDERS

Meta-analysis of gut microbiome studies identifies disease-specific and shared responses

(2017) Claire Duvallet et al.   Nature Communications

Parkinson’s disease and colorectal cancer risk—A nested case control study

(2016) Ben Boursi et al.   Cancer Epidemiology

Genetic Determinants of the Gut Microbiome in UK Twins

(2016) Julia K. Goodrich et al.   Cell Host & Microbe

Evaluation of type 2 diabetes genetic risk variants in Chinese adults: findings from 93,000 individuals from the China Kadoorie Biobank

(2016) Wei Gan et al.   DIABETOLOGIA

Identification of Susceptibility Loci and Genes for Colorectal Cancer Risk

(2016) Chenjie Zeng et al.   GASTROENTEROLOGY

Consistent Estimation in Mendelian Randomization with Some Invalid Instruments Using a Weighted Median Estimator

(2016) Jack Bowden et al.   GENETIC EPIDEMIOLOGY

The effect of heritability and host genetics on the gut microbiota and metabolic syndrome

(2016) Mi Young Lim et al.   GUT

Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota

(2016) Jun Wang et al.   NATURE GENETICS

The effect of host genetics on the gut microbiome

(2016) Marc Jan Bonder 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

Association of host genome with intestinal microbial composition in a large healthy cohort

(2016) Williams Turpin et al.   NATURE GENETICS

Next-generation genotype imputation service and methods

(2016) Sayantan Das et al.   NATURE GENETICS

The international Genome sample resource (IGSR): A worldwide collection of genome variation incorporating the 1000 Genomes Project data

(2016) Laura Clarke et al.   NUCLEIC ACIDS RESEARCH

A genetic study and meta-analysis of the genetic predisposition of prostate cancer in a Chinese population

(2016) Jacek Marzec et al.   Oncotarget

Risk of Malignant Cancer Among Women With New-Onset Atrial Fibrillation

(2016) David Conen et al.   JAMA Cardiology

Association of magnesium in serum and urine with carotid intima-media thickness and serum lipids in middle-aged and elderly Chinese: a community-based cross-sectional study

(2015) Yi Cao et al.   EUROPEAN JOURNAL OF NUTRITION

LD Score regression distinguishes confounding from polygenicity in genome-wide association studies

(2015) Brendan K Bulik-Sullivan et al.   NATURE GENETICS

Sparse and Compositionally Robust Inference of Microbial Ecological Networks

(2015) Zachary D. Kurtz et al.   PLoS Computational Biology

Genome-Wide Association Studies of the Human Gut Microbiota

(2015) Emily R. Davenport et al.   PLoS One

Associations between the dietary intake of antioxidant nutrients and the risk of hip fracture in elderly Chinese: a case–control study

(2014) Li-li Sun et al.   BRITISH JOURNAL OF NUTRITION

Human Genetics Shape the Gut Microbiome

(2014) Julia K. Goodrich et al.   CELL

Risk for ACPA-positive rheumatoid arthritis is driven by shared HLA amino acid polymorphisms in Asian and European populations

(2014) Yukinori Okada et al.   HUMAN MOLECULAR GENETICS

Predicting HLA alleles from high-resolution SNP data in three Southeast Asian populations

(2014) Nisha Esakimuthu Pillai et al.   HUMAN MOLECULAR GENETICS

Advantages and pitfalls in the application of mixed-model association methods

(2014) Jian Yang et al.   NATURE GENETICS

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle

(2014) Xuesong He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel

(2014) Olivier Delaneau et al.   Nature Communications

Statistical Power to Detect Genetic (Co)Variance of Complex Traits Using SNP Data in Unrelated Samples

(2014) Peter M. Visscher et al.   PLoS Genetics

Genetics of rheumatoid arthritis contributes to biology and drug discovery

(2013) Yukinori Okada et al.   NATURE

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

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

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

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Imputing Amino Acid Polymorphisms in Human Leukocyte Antigens

(2013) Xiaoming Jia et al.   PLoS One

Quantitative Genetic Background of the Host Influences Gut Microbiomes in Chickens

(2013) Lele Zhao et al.   Scientific Reports

Estimation of pleiotropy between complex diseases using single-nucleotide polymorphism-derived genomic relationships and restricted maximum likelihood

(2012) S.H. Lee et al.   BIOINFORMATICS

Meta-analysis identifies multiple loci associated with kidney function–related traits in east Asian populations

(2012) Yukinori Okada et al.   NATURE GENETICS

Genome-wide association study in Han Chinese identifies four new susceptibility loci for coronary artery disease

(2012) Xiangfeng Lu et al.   NATURE GENETICS

Estimating Missing Heritability for Disease from Genome-wide Association Studies

(2011) Sang Hong Lee et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Meta-analysis of Parkinson's Disease: Identification of a novel locus, RIT2

(2011) Nathan Pankratz et al.   ANNALS OF NEUROLOGY

Enterotypes of the human gut microbiome

(2011) Manimozhiyan Arumugam et al.   NATURE

A linear complexity phasing method for thousands of genomes

(2011) Olivier Delaneau et al.   NATURE METHODS

GCTA: A Tool for Genome-wide Complex Trait Analysis

(2010) Jian Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Common SNPs explain a large proportion of the heritability for human height

(2010) Jian Yang et al.   NATURE GENETICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Data quality control in genetic case-control association studies

(2010) Carl A Anderson et al.   Nature Protocols

Uncovering the roles of rare variants in common disease through whole-genome sequencing

(2010) Elizabeth T. Cirulli et al.   NATURE REVIEWS GENETICS

Intestinal TM7 bacterial phylogenies in active inflammatory bowel disease

(2008) T. Kuehbacher et al.   JOURNAL OF MEDICAL MICROBIOLOGY