Johan Van Limbergen

Research

Metagenomics Bioinformatics Cancer Deep Learning Inflamatory Bowel Disease Long Read Sequencing Machine Learning Microbiome

Latest papers

Influence of timing of maternal antibiotic administration during caesarean section on infant microbial colonisation: a randomised controlled trial.
Gut · 2022
Nutritional Therapies and Their Influence on the Intestinal Microbiome in Pediatric Inflammatory Bowel Disease
Nutrients · 2022
Multisystem Autoimmune Inflammatory Disease, Including Colitis, Due to Inborn Error of Immunity.
Pediatrics · 2021

All 28 publications

Latest funding

Novel and robust systems based approaches for the identification and translation of microbiome derived diagnostic and therapeutics
CIHR · 2018 · Principal investigator
$25,000
Role of microbes in the pathogenesis of PIBD: From discovery, through causation, to novel treatments
CIHR · 2018 · Co-investigator
$25,000
Canada Research Chair Tier 2
CIHR · 2016 · Nominated PI
$500,000

All 5 grants and awards

28 publications.

01

Influence of timing of maternal antibiotic administration during caesarean section on infant microbial colonisation: a randomised controlled trial.

Dierikx T, Berkhout D, Eck A, Tims S, van Limbergen J, Visser D, de Boer M, de Boer N, Touw D, Benninga M, Schierbeek N, Visser L, Knol J, Roeselers G, de Vries J, de Meij T

Gut2022

DOI: 10.1136/gutjnl-2021-324767 PMID: 34803023

02

Nutritional Therapies and Their Influence on the Intestinal Microbiome in Pediatric Inflammatory Bowel Disease

Hart L, Verburgt CM, Wine E, Zachos M, Poppen A, Chavannes M, Van Limbergen J, Pai N

Nutrients202232 citations

DOI: 10.3390/nu14010004

03

Multisystem Autoimmune Inflammatory Disease, Including Colitis, Due to Inborn Error of Immunity.

Malik A, Stringer E, Warner N, van Limbergen J, Vandersteen A, Muise A, Derfalvi B

Pediatrics2021

DOI: 10.1542/peds.2021-050614 PMID: 34686572

04

Diagnostic Delay Is Associated With Complicated Disease and Growth Impairment in Paediatric Crohn's Disease.

Ricciuto A, Mack DR, Huynh HQ, Jacobson K, Otley AR, deBruyn J, El-Matary W, Deslandres C, Sherlock ME, Critch JN, Bax K, Jantchou P, Seidman EG, Carman N, Rashid M, Muise A, Wine E, Carroll MW, Lawrence S, Van Limbergen J, Benchimol EI, Walters TD, Griffiths AM, Church PC

Journal of Crohn's & colitis2021

DOI: 10.1093/ecco-jcc/jjaa197 PMID: 32978629

05

SuRF: A new method for sparse variable selection, with application in microbiome data analysis.

Liu L, Gu H, Van Limbergen J, Kenney T

Statistics in medicine2021

DOI: 10.1002/sim.8809 PMID: 33219557

06

Assessing the Variation within the Oral Microbiome of Healthy Adults.

Nearing JT, DeClercq V, Van Limbergen J, Langille MGI

mSphere2020

DOI: 10.1128/msphere.00451-20 PMID: 32999079

07

Bacterial Taxa and Functions Are Predictive of Sustained Remission Following Exclusive Enteral Nutrition in Pediatric Crohn's Disease.

Jones CMA, Connors J, Dunn KA, Bielawski JP, Comeau AM, Langille MGI, Van Limbergen J

Inflammatory bowel diseases2020Senior author

DOI: 10.1093/ibd/izaa001 PMID: 31961432

08

The relationship between fecal bile acids and microbiome community structure in pediatric Crohn's disease.

Connors J, Dunn KA, Allott J, Bandsma R, Rashid M, Otley AR, Bielawski JP, Van Limbergen J

The ISME journal2020Senior author

DOI: 10.1038/s41396-019-0560-3 PMID: 31796936

09

Crohn's Disease Exclusion Diet Plus Partial Enteral Nutrition Induces Sustained Remission in a Randomized Controlled Trial.

Levine A, Wine E, Assa A, Sigall Boneh R, Shaoul R, Kori M, Cohen S, Peleg S, Shamaly H, On A, Millman P, Abramas L, Ziv-Baran T, Grant S, Abitbol G, Dunn KA, Bielawski JP, Van Limbergen J

Gastroenterology2019Senior author

DOI: 10.1053/j.gastro.2019.04.021 PMID: 31170412

10

Infectious Complications Are Associated With Alterations in the Gut Microbiome in Pediatric Patients With Acute Lymphoblastic Leukemia.

Nearing JT, Connors J, Whitehouse S, Van Limbergen J, Macdonald T, Kulkarni K, Langille MGI

Frontiers in cellular and infection microbiology2019

DOI: 10.3389/fcimb.2019.00028 PMID: 30838178

Novel and robust systems based approaches for the identification and translation of microbiome derived diagnostic and therapeutics

Principal investigatorCIHR2018Team Grant: Canadian Microbiome Initiative 2: Research Teams - LOI

Principal investigators: Langille, Morgan G; Beiko, Robert G; Bielawski, Joseph P; Declercq, Vanessa C; Gloor, Gregory B; Parkinson, John; Van Limbergen, Johan E

Keywords: Bioinformatics; Cancer; Deep Learning; Inflamatory Bowel Disease; Long Read Sequencing; Machine Learning; Metagenomics; Microbiome; Sex And Gender; Statistics

$25,000

Role of microbes in the pathogenesis of PIBD: From discovery, through causation, to novel treatments

Co-investigatorCIHR2018Team Grant: Canadian Microbiome Initiative 2: Research Teams - LOI

Principal investigators: Vallance, Bruce A; Griffiths, Anne Marie; Mack, David R; Muise, Aleixo M; Parkinson, John; Tropini, Carolina; Wine, Eytan

Keywords: Children; Inflammatory Bowel Disease; Mucus; Multiomics; Nutrition; Organoids; Pathobionts; Therapeutic Interventions

$25,000

Canada Research Chair Tier 2

Nominated PICIHR2016Canada Research Chairs - CIHR Funded - Tier 2

Principal investigators: Van Limbergen, Johan E

Keywords: Crc

$500,000

Improving metagenomic inference and sample classification in inflammatory bowel disease

Co-investigatorNSERC2015Collaborative Research and Development Grants

Principal investigators: Langille, Morgan

$80,000

Optimizing Enteral Nutrition Therapy in Pediatric Crohn's disease: Microbiome ecology to guide bench-to-bedside translational research

Nominated PICIHR2014New Investigator Salary Award - PA: Inflammatory Bowel Disease

Principal investigators: Van Limbergen, Johan E

Keywords: Crohn'S Disease; Genetics; Inflammatory Bowel Disease; Intestinal Stem Cell Culture; Metagenomics; Microbiota; Organoids; Pediatric; Personalised Medicine; Response To Treatment

$142,500

From CIHR, NSERC and SSHRC funding decisions: CIHR since 2008, NSERC since 1991 and SSHRC since 1998, including their latest published competition results.

Frequent collaborators

Pediatrics
Pediatric Gastroenterology and Nutrition
Biochemistry, Microbiology & Immunology
Health Administration
Other

Applying for

Paper to mention

Subject: Prospective PhD student: Metagenomics Dear Professor Van Limbergen, My name is [your name], and I am a [your current degree or role] at [your institution]. I am applying for a PhD position starting in [term and year]. I read your paper "Influence of timing of maternal antibiotic administration during caesarean section on infant microbial colonisation: a randomised controlled trial." (2022), and it connects closely to my own work on [your research topic]. [One or two sentences on what you did and what you learned.] Are you accepting new PhD students for [term and year]? I have attached my CV and transcripts, and I would be glad to talk at a time that suits you. Thank you for your time. Kind regards, [your name]