World's Best Scientists 2026 revealed!

D-Index & Metrics

Biology and Biochemistry

D-Index
69
Citations
97587
World Ranking
7194
National Ranking
3299

Overview

Kyle Bittinger is affiliated with the Children's Hospital of Philadelphia in the United States. Their research spans several fields within Medicine and Biochemistry, Genetics and Molecular Biology, with significant focus on Molecular Biology, Infectious Diseases, Epidemiology, Physiology, and Surgery.

The primary topics addressed in their work include:

  • Gut microbiota and health
  • Clostridium difficile and Clostridium perfringens research
  • Diet and metabolism studies
  • Inflammatory Bowel Disease
  • Probiotics and Fermented Foods
  • Helicobacter pylori-related gastroenterology studies

Bittinger has published research extensively in a variety of scientific journals. Frequent publication venues include Gastroenterology, bioRxiv (Cold Spring Harbor Laboratory), Gut Microbes, mBio, and the Journal of Crohn's and Colitis.

Recent papers authored or co-authored by Bittinger include:

  • "Dysbiosis-Induced Secondary Bile Acid Deficiency Promotes Intestinal Inflammation," 2020, Cell Host & Microbe
  • "The stepwise assembly of the neonatal virome is modulated by breastfeeding," 2020, Nature
  • "Role of dietary fiber in the recovery of the human gut microbiome and its metabolome," 2021, Cell Host & Microbe
  • "A Randomized Trial Comparing the Specific Carbohydrate Diet to a Mediterranean Diet in Adults With Crohn's Disease," 2021, Gastroenterology
  • "Bile salt hydrolase catalyses formation of amine-conjugated bile acids," 2024, Nature

Bittinger has collaborated frequently with several researchers, including Ceylan Tanes, Gary D. Wu, Scott G. Daniel, Elliot S. Friedman, and Lisa M. Mattei. These collaborations reflect sustained partnerships across many projects.

Best Publications

  • QIIME allows analysis of high-throughput community sequencing data.

    J Gregory Caporaso;Justin Kuczynski;Jesse Stombaugh;Kyle Bittinger

  • Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

    Evan Bolyen;Jai Ram Rideout;Matthew R. Dillon;Nicholas A. Bokulich

  • Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

    Gary D. Wu;Jun Chen;Christian Hoffmann;Christian Hoffmann;Kyle Bittinger

  • Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

    Evan Bolyen;Jai Ram Rideout;Matthew R. Dillon;Nicholas A. Bokulich

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

    J. Gregory Caporaso;Kyle Bittinger;Frederic D. Bushman;Todd Z. DeSantis

  • Normalization and microbial differential abundance strategies depend upon data characteristics

    Sophie Weiss;Zhenjiang Zech Xu;Shyamal Peddada;Amnon Amir

  • Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract

    Emily S. Charlson;Kyle Bittinger;Andrew R. Haas;Ayannah S. Fitzgerald

  • Associating microbiome composition with environmental covariates using generalized UniFrac distances

    Jun Chen;Kyle Bittinger;Emily S. Charlson;Christian Hoffmann

  • Association Between Breast Milk Bacterial Communities and Establishment and Development of the Infant Gut Microbiome

    Pia S. Pannaraj;Fan Li;Chiara Cerini;Jeffrey M. Bender;Jeffrey M. Bender

  • QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science

    Evan Bolyen;Jai Ram Rideout;Matthew R Dillon;Nicholas A Bokulich

  • Dysbiosis-Induced Secondary Bile Acid Deficiency Promotes Intestinal Inflammation

    Sidhartha R. Sinha;Yeneneh Haileselassie;Linh P. Nguyen;Carolina Tropini

  • Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn's Disease.

    James D. Lewis;Eric Z. Chen;Robert N. Baldassano;Anthony R. Otley

  • Correlation between intraluminal oxygen gradient and radial partitioning of intestinal microbiota.

    Lindsey Albenberg;Tatiana V. Esipova;Colleen P. Judge;Kyle Bittinger

  • Optimizing methods and dodging pitfalls in microbiome research

    Dorothy Kim;Casey E. Hofstaedter;Chunyu Zhao;Lisa Mattei

  • Comparative metabolomics in vegans and omnivores reveal constraints on diet-dependent gut microbiota metabolite production

    Gary D Wu;Charlene Compher;Eric Z Chen;Sarah A Smith

  • Comparison of placenta samples with contamination controls does not provide evidence for a distinct placenta microbiota.

    Abigail P. Lauder;Aoife M. Roche;Scott Sherrill-Mix;Aubrey Bailey

  • Disordered Microbial Communities In The Upper Respiratory Tract Of Cigarette Smokers

    Emily S. Charlson;Jen Chen;Rebecca Custers-Allen;Kyle Bittinger

  • Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags

    Gary D. Wu;James D. Lewis;Christian Hoffmann;Christian Hoffmann;Ying Yu Chen

  • Power and Sample-Size Estimation for Microbiome Studies Using Pairwise Distances and PERMANOVA

    Brendan J. Kelly;Robert Gross;Kyle Bittinger;Scott Sherrill-Mix

  • Lung-enriched Organisms and Aberrant Bacterial and Fungal Respiratory Microbiota after Lung Transplant

    Emily S. Charlson;Joshua M. Diamond;Kyle Bittinger;Ayannah S. Fitzgerald

Frequent Co-Authors

Frederic D. Bushman
Frederic D. Bushman University of Pennsylvania
Gary D. Wu
Gary D. Wu University of Pennsylvania
James D. Lewis
James D. Lewis University of Pennsylvania
Robert N. Baldassano
Robert N. Baldassano Children's Hospital of Philadelphia
Ronald G. Collman
Ronald G. Collman University of Pennsylvania
Catherine A. Lozupone
Catherine A. Lozupone University of Colorado Anschutz Medical Campus
Rob Knight
Rob Knight University of California, San Diego
Ruth E. Ley
Ruth E. Ley Max Planck Society
Curtis Huttenhower
Curtis Huttenhower Harvard University
Sergei A. Vinogradov
Sergei A. Vinogradov University of Pennsylvania

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