High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia

Leveraging sequence-based faecal microbial community survey data to identify a composite biomarker for colorectal cancer

(2017) Manasi S Shah et al.   GUT

Urinary Microbiome and Cytokine Levels in Women With Interstitial Cystitis

(2017) Melinda G. Abernethy et al.   OBSTETRICS AND GYNECOLOGY

Screening for enterotoxigenic Bacteroides fragilis in stool samples

(2016) Jacqueline I. Keenan et al.   ANAEROBE

Enrichment dynamics of Listeria monocytogenes and the associated microbiome from naturally contaminated ice cream linked to a listeriosis outbreak

(2016) Andrea Ottesen et al.   BMC MICROBIOLOGY

Tumour-associated and non-tumour-associated microbiota in colorectal cancer

(2016) Burkhardt Flemer et al.   GUT

The myeloid immune signature of enterotoxigenic Bacteroides fragilis-induced murine colon tumorigenesis

(2016) E Thiele Orberg et al.   Mucosal Immunology

Two FOXP3+CD4+ T cell subpopulations distinctly control the prognosis of colorectal cancers

(2016) Takuro Saito et al.   NATURE MEDICINE

Association ofFusobacterium nucleatuminfection with colorectal cancer in Chinese patients

(2016) Yu-Yuan Li et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Microbiota-based model improves the sensitivity of fecal immunochemical test for detecting colonic lesions

(2016) Nielson T. Baxter et al.   Genome Medicine

Metabolic and Community Synergy of Oral Bacteria in Colorectal Cancer

(2016) Kaitlin J. Flynn et al.   mSphere

Metabolism Links Bacterial Biofilms and Colon Carcinogenesis

(2015) Caroline H. Johnson et al.   Cell Metabolism

Fusobacterium nucleatum: a commensal-turned pathogen

(2015) Yiping W Han   CURRENT OPINION IN MICROBIOLOGY

Binding of the Fap2 Protein of Fusobacterium nucleatum to Human Inhibitory Receptor TIGIT Protects Tumors from Immune Cell Attack

(2015) Chamutal Gur et al.   IMMUNITY

Fap2 of Fusobacterium nucleatum Is a Galactose-Inhibitable Adhesin Involved in Coaggregation, Cell Adhesion, and Preterm Birth

(2015) S. Coppenhagen-Glazer et al.   INFECTION AND IMMUNITY

Gut mucosal microbiome across stages of colorectal carcinogenesis

(2015) Geicho Nakatsu et al.   Nature Communications

Virulence genes are a signature of the microbiome in the colorectal tumor microenvironment

(2015) Michael B. Burns et al.   Genome Medicine

Quantitative Profiling of Colorectal Cancer-Associated Bacteria Reveals Associations between Fusobacterium spp., Enterotoxigenic Bacteroides fragilis (ETBF) and Clinicopathological Features of Colorectal Cancer

(2015) Katie S. Viljoen et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

The Human Gut Microbiome as a Screening Tool for Colorectal Cancer

(2014) J. P. Zackular et al.   Cancer Prevention Research

The Bacteroides fragilis Toxin Gene Is Prevalent in the Colon Mucosa of Colorectal Cancer Patients

(2014) Annemarie Boleij et al.   CLINICAL INFECTIOUS DISEASES

Bacteroides fragilis subverts mucosal biology: from symbiont to colon carcinogenesis

(2014) Cynthia L. Sears et al.   JOURNAL OF CLINICAL INVESTIGATION

Microbial mucosal colonic shifts associated with the development of colorectal cancer reveal the presence of different bacterial and archaeal biomarkers

(2014) L. Mira-Pascual et al.   JOURNAL OF GASTROENTEROLOGY

Potential of fecal microbiota for early-stage detection of colorectal cancer

(2014) G. Zeller et al.   Molecular Systems Biology

Microbiota organization is a distinct feature of proximal colorectal cancers

(2014) Christine M. Dejea et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Co-occurrence of driver and passenger bacteria in human colorectal cancer

(2014) Jiawei Geng et al.   Gut Pathogens

An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform

(2014) Douglas W Fadrosh et al.   Microbiome

Fusobacterium nucleatum Potentiates Intestinal Tumorigenesis and Modulates the Tumor-Immune Microenvironment

(2013) Aleksandar D. Kostic et al.   Cell Host & Microbe

Fusobacterium nucleatum Promotes Colorectal Carcinogenesis by Modulating E-Cadherin/β-Catenin Signaling via its FadA Adhesin

(2013) Mara Roxana Rubinstein et al.   Cell Host & Microbe

Spatial heterogeneity and co-occurrence patterns of human mucosal-associated intestinal microbiota

(2013) Zhigang Zhang et al.   ISME Journal

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

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

Stool Microbiome and Metabolome Differences between Colorectal Cancer Patients and Healthy Adults

(2013) Tiffany L. Weir et al.   PLoS One

The in vivo biofilm

(2013) Thomas Bjarnsholt et al.   TRENDS IN MICROBIOLOGY

Diversified pattern of the human colorectal cancer microbiome

(2013) Jiawei Geng et al.   Gut Pathogens

Co-occurrence of anaerobic bacteria in colorectal carcinomas

(2013) René L Warren et al.   Microbiome

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Fast, accurate error-correction of amplicon pyrosequences using Acacia

(2012) Lauren Bragg et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads

(2011) Andrea K. Bartram et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

(2011) M. Castellarin et al.   GENOME RESEARCH

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

(2011) A. D. Kostic et al.   GENOME RESEARCH

Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers

(2011) Tingting Wang et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Microbial Dysbiosis in Colorectal Cancer (CRC) Patients

(2011) Iradj Sobhani et al.   PLoS One

Towards the Human Colorectal Cancer Microbiome

(2011) Julian R. Marchesi et al.   PLoS One

Polyamine catabolism contributes to enterotoxigenic Bacteroides fragilis-induced colon tumorigenesis

(2011) A. C. Goodwin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information

(2010) T. Chen et al.   Database-The Journal of Biological Databases and Curation

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Enterotoxigenic Bacteroides fragilis: a Rogue among Symbiotes

(2009) C. L. Sears   CLINICAL MICROBIOLOGY REVIEWS

A human colonic commensal promotes colon tumorigenesis via activation of T helper type 17 T cell responses

(2009) Shaoguang Wu et al.   NATURE MEDICINE

Research electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support

(2008) Paul A. Harris et al.   JOURNAL OF BIOMEDICAL INFORMATICS