Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Direct Antimicrobial Resistance Prediction from MALDI-TOF mass spectra profile in clinical isolates through Machine Learning

View ORCID ProfileCaroline Weis, View ORCID ProfileAline Cuénod, View ORCID ProfileBastian Rieck, Felipe Llinares-López, Olivier Dubuis, Susanne Graf, Claudia Lang, Michael Oberle, Kirstine K. Soegaard, View ORCID ProfileMichael Osthoff, View ORCID ProfileKarsten Borgwardt, View ORCID ProfileAdrian Egli
doi: https://doi.org/10.1101/2020.07.30.228411
Caroline Weis
1Department of Biosystems and Engineering, ETH Zürich, Basel, Switzerland
2SIB Swiss Institute of Bioinformatics, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Caroline Weis
  • For correspondence: caroline.weis@bsse.ethz.ch karsten.borgwardt@bsse.ethz.ch adrian.egli@usb.ch
Aline Cuénod
3Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland
4Division of Clinical Bacteriology and Mycology, University Hospital Basel, Basel, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Aline Cuénod
Bastian Rieck
1Department of Biosystems and Engineering, ETH Zürich, Basel, Switzerland
2SIB Swiss Institute of Bioinformatics, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Bastian Rieck
Felipe Llinares-López
1Department of Biosystems and Engineering, ETH Zürich, Basel, Switzerland
2SIB Swiss Institute of Bioinformatics, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Olivier Dubuis
8Clinical Microbiology, Viollier AG, Allschwil, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Susanne Graf
7Department for Microbiology, Cantonal Hospital Baselland, Liestal, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Claudia Lang
8Clinical Microbiology, Viollier AG, Allschwil, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Michael Oberle
9Institute for Laboratory Medicine, Medical Microbiology, Cantonal Hospital of Aarau, Aarau, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Kirstine K. Soegaard
3Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland
4Division of Clinical Bacteriology and Mycology, University Hospital Basel, Basel, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Michael Osthoff
5Division of Infectious Diseases and Hospital Epidemiology, University Hospital and University of Basel, Basel, Switzerland
6Department of Internal Medicine, University Hospital and University of Basel, Basel, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Michael Osthoff
Karsten Borgwardt
1Department of Biosystems and Engineering, ETH Zürich, Basel, Switzerland
2SIB Swiss Institute of Bioinformatics, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Karsten Borgwardt
  • For correspondence: caroline.weis@bsse.ethz.ch karsten.borgwardt@bsse.ethz.ch adrian.egli@usb.ch
Adrian Egli
3Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland
4Division of Clinical Bacteriology and Mycology, University Hospital Basel, Basel, Switzerland
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Adrian Egli
  • For correspondence: caroline.weis@bsse.ethz.ch karsten.borgwardt@bsse.ethz.ch adrian.egli@usb.ch
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Data/Code
  • Preview PDF
Loading

Article Information

doi 
https://doi.org/10.1101/2020.07.30.228411
History 
  • July 30, 2020.
Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.

Author Information

  1. Caroline Weis1,2,*,
  2. Aline Cuénod3,4,
  3. Bastian Rieck1,2,
  4. Felipe Llinares-López1,2,
  5. Olivier Dubuis8,
  6. Susanne Graf7,
  7. Claudia Lang8,
  8. Michael Oberle9,
  9. Kirstine K. Soegaard3,4,
  10. Michael Osthoff5,6,
  11. Karsten Borgwardt1,2,*,+ and
  12. Adrian Egli3,4,*,+
  1. 1Department of Biosystems and Engineering, ETH Zürich, Basel, Switzerland
  2. 2SIB Swiss Institute of Bioinformatics, Switzerland
  3. 3Applied Microbiology Research, Department of Biomedicine, University of Basel, Basel, Switzerland
  4. 4Division of Clinical Bacteriology and Mycology, University Hospital Basel, Basel, Switzerland
  5. 5Division of Infectious Diseases and Hospital Epidemiology, University Hospital and University of Basel, Basel, Switzerland
  6. 6Department of Internal Medicine, University Hospital and University of Basel, Basel, Switzerland
  7. 7Department for Microbiology, Cantonal Hospital Baselland, Liestal, Switzerland
  8. 8Clinical Microbiology, Viollier AG, Allschwil, Switzerland
  9. 9Institute for Laboratory Medicine, Medical Microbiology, Cantonal Hospital of Aarau, Aarau, Switzerland
  1. ↵*corresponding: Caroline Weis, Machine Learning and Computational Biology Lab, Mattenstrasse 26, 4058 Basel, Switzerland, Email: caroline.weis{at}bsse.ethz.ch, Phone: +41 61 387 34 39, Prof. Dr. Karsten Borgwardt, Machine Learning and Computational Biology Lab, Mattenstrasse 26, 4058 Basel, Switzerland, Email: karsten.borgwardt{at}bsse.ethz.ch, Phone: +41 61 387 34 20, Prof. Dr. Dr. Adrian Egli, MD PhD, Clinical Bacteriology and Mycology, University Hospital Basel, Petersgraben 4, 4031 Basel, Switzerland, Email: adrian.egli{at}usb.ch, Phone: +41 61 556 57 49
  1. ↵+ equally contributed

Back to top
PreviousNext
Posted July 30, 2020.
Download PDF
Data/Code
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Direct Antimicrobial Resistance Prediction from MALDI-TOF mass spectra profile in clinical isolates through Machine Learning
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Direct Antimicrobial Resistance Prediction from MALDI-TOF mass spectra profile in clinical isolates through Machine Learning
Caroline Weis, Aline Cuénod, Bastian Rieck, Felipe Llinares-López, Olivier Dubuis, Susanne Graf, Claudia Lang, Michael Oberle, Kirstine K. Soegaard, Michael Osthoff, Karsten Borgwardt, Adrian Egli
bioRxiv 2020.07.30.228411; doi: https://doi.org/10.1101/2020.07.30.228411
Digg logo Reddit logo Twitter logo CiteULike logo Facebook logo Google logo Mendeley logo
Citation Tools
Direct Antimicrobial Resistance Prediction from MALDI-TOF mass spectra profile in clinical isolates through Machine Learning
Caroline Weis, Aline Cuénod, Bastian Rieck, Felipe Llinares-López, Olivier Dubuis, Susanne Graf, Claudia Lang, Michael Oberle, Kirstine K. Soegaard, Michael Osthoff, Karsten Borgwardt, Adrian Egli
bioRxiv 2020.07.30.228411; doi: https://doi.org/10.1101/2020.07.30.228411

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Microbiology
Subject Areas
All Articles
  • Animal Behavior and Cognition (2434)
  • Biochemistry (4796)
  • Bioengineering (3335)
  • Bioinformatics (14704)
  • Biophysics (6649)
  • Cancer Biology (5180)
  • Cell Biology (7439)
  • Clinical Trials (138)
  • Developmental Biology (4373)
  • Ecology (6890)
  • Epidemiology (2057)
  • Evolutionary Biology (9930)
  • Genetics (7351)
  • Genomics (9542)
  • Immunology (4570)
  • Microbiology (12700)
  • Molecular Biology (4954)
  • Neuroscience (28381)
  • Paleontology (199)
  • Pathology (809)
  • Pharmacology and Toxicology (1394)
  • Physiology (2025)
  • Plant Biology (4516)
  • Scientific Communication and Education (978)
  • Synthetic Biology (1302)
  • Systems Biology (3919)
  • Zoology (729)