Patrick Schloss, PhD
Program Director of Microbiology and Immunology AP&A
Frederick G Novy Collegiate Professor of Microbiome Research and Professor of Microbiology and Immunology
[email protected]

Available to mentor

Patrick Schloss, PhD
Professor
  • Qualifications
  • Center Memberships
  • Research Overview
  • Links
  • Recent Publications
  • Qualifications
    • PhD
      Cornell University, Ithaca, 2002
    • BS
      Cornell University, Ithaca, 1997
    Center Memberships
    • Center Member
      Rogel Cancer Center
    • Center Member
      Center for Computational Medicine and Bioinformatics
    Research Overview

    "...it would appear to be a pointless and doubtful exercise to examine and disentangle the apparently random appearing bacteria in normal feces and the intestinal tract, a situation that seems controlled by a thousand coincidences... Yet I have nevertheless devoted myself now for a year virtually exclusively to this special study, it was with the conviction that the accurate knowledge of these conditions is essential, for the understanding of not only the physiology of digestion..., but also the pathology and therapy of microbial intestinal diseases."
    --Theodor Escherich (1888)

    Nearly 130 years later, our research group shares the dedication of Theodor Escherich as we try to understand the role of the gut microbiota in Clostridium difficile infections and the progression of colorectal cancer. Since Escherich found the causative agent for diarrhea, what we now call E. coli, a lot has happened in science. We now have a far better understanding of microbiology, molecular biology, ecology, evolutionary theory, and statistics. Our research group is dedicated to integrating across disciplines to advance our knowledge of the role of the microbiome in human health. Human microbiome research is experiencing an amazing period of growth and we are helping to lead that effort.

    Links
    • Schloss Lab
    Recent Publications See All Publications
    • Journal Article
      Rarefaction is currently the best approach to control for uneven sequencing effort in amplicon sequence analyses.
      Schloss PD. mSphere, 2024 Feb 28; 9 (2): e0035423 DOI:10.1128/msphere.00354-23
      PMID: 38251877
    • Journal Article
      Waste not, want not: revisiting the analysis that called into question the practice of rarefaction.
      Schloss PD. mSphere, 2024 Jan 30; 9 (1): e0035523 DOI:10.1128/msphere.00355-23
      PMID: 38054712
    • Journal Article
      More evidence of Impact Factor Mania.
      Schloss PD, Cuomo CA. Microbiol Spectr, 2023 Dec 12; 11 (6): e0349623 DOI:10.1128/spectrum.03496-23
      PMID: 37909768
    • Journal Article
      Machine learning classification by fitting amplicon sequences to existing OTUs.
      Armour CR, Sovacool KL, Close WL, Topçuoğlu BD, Wiens J, Schloss PD. mSphere, 2023 Oct 24; 8 (5): e0033623 DOI:10.1128/msphere.00336-23
      PMID: 37615431
    • Preprint
      Waste not, want not: Revisiting the analysis that called into question the practice of rarefaction
      Schloss P. 2023 bioRxiv, DOI:10.1101/2023.06.23.546312
    • Preprint
      Rarefaction is currently the best approach to control for uneven sequencing effort in amplicon sequence analyses
      Schloss P. 2023 bioRxiv, DOI:10.1101/2023.06.23.546313
    • Preprint
      Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful?
      Afiaz A, Ivanov A, Chamberlin J, Hanauer D, Savonen C, Goldman MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC, Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT, Wright C. 2023 Jun 5; arXiv, DOI:10.48550/arxiv.2306.03255
    • Journal Article
      Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful?
      Afiaz A, Ivanov AA, Chamberlin J, Hanauer D, Savonen CL, Goldman MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC, Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT, Wright C. ArXiv, 2023 Jun 5;
      PMID: 37332562
    Featured News & Stories
    Department News
    Pat Schloss and Will Fitzsimmons receive 2023 EBS Awards
    Pat Schloss and Will Fitzsimmons receive 2023 EBS Awards