Pratik D Jagtap (Pratik Jagtap)

Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 35

Top Topics

Mass Spectrometry

Irritable Bowel Syndrome

Gas Chromatography

Top Venues

Journal of proteome research

This page only lists publications with an associated author ORCID identifier.

Publications

Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere 9 (6) (2024)
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, James E Johnson, Reid Wagner, Chris H Wendt, John B O'Connor, J Kirk Harris, Theresa A Laguna, Pratik D Jagtap, Timothy J Griffin
An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems (2024)
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, James E Johnson, Reid Wagner, Chris H Wendt, John B O'Connor, J Kirk Harris, Theresa A Laguna, Pratik D Jagtap, Timothy J Griffin
An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems 9 (7) (2024)
Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere 9 (6) (2024)
Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere (2024)
Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere 9 (6) (2024)
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, James E Johnson, Reid Wagner, Chris H Wendt, John B O'Connor, J Kirk Harris, Theresa A Laguna, Pratik D Jagtap, Timothy J Griffin
An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems (2024)
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, James E Johnson, Reid Wagner, Chris H Wendt, John B O'Connor, J Kirk Harris, Theresa A Laguna, Pratik D Jagtap, Timothy J Griffin
An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems 9 (7) (2024)
Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere (2024)
Katherine Do, Subina Mehta, Reid Wagner, Dechen Bhuming, Andrew T Rajczewski, Amy P N Skubitz, James E Johnson, Timothy J Griffin, Pratik D Jagtap
A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. mSphere 9 (6) (2024)
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, James E Johnson, Reid Wagner, Chris H Wendt, John B O'Connor, J Kirk Harris, Theresa A Laguna, Pratik D Jagtap, Timothy J Griffin
An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems 9 (7) (2024)
Joanna M Kirkpatrick, Paul M Stemmer, Brian C Searle, Laura E Herring, LeRoy Martin, Mukul K Midha, Brett S Phinney, Baozhen Shan, Magnus Palmblad, Yan Wang, Pratik D Jagtap, Benjamin A Neely
2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Proteomics Study. Journal of biomolecular techniques : JBT 34 (2) (2023)
Surbhi Bihani, Aryan Gupta, Subina Mehta, Andrew T Rajczewski, James Johnson, Dhanush Borishetty, Timothy J Griffin, Sanjeeva Srivastava, Pratik D Jagtap
Metaproteomic Analysis of Nasopharyngeal Swab Samples to Identify Microbial Peptides in COVID-19 Patients. Journal of proteome research (2023)
Subina Mehta, Valdemir M Carvalho, Andrew T Rajczewski, Olivier Pible, Björn A Grüning, James E Johnson, Reid Wagner, Jean Armengaud, Timothy J Griffin, Pratik D Jagtap
Catching the Wave: Detecting Strain-Specific SARS-CoV-2 Peptides in Clinical Samples Collected during Infection Waves from Diverse Geographical Locations. Viruses 14 (10) (2022)
Andrew T Rajczewski, Qiyuan Han, Subina Mehta, Praveen Kumar, Pratik D Jagtap, Charles G Knutson, James G Fox, Natalia Y Tretyakova, Timothy J Griffin
Quantitative Proteogenomic Characterization of Inflamed Murine Colon Tissue Using an Integrated Discovery, Verification, and Validation Proteogenomic Workflow. Proteomes 10 (2) (2022)
Adam L Edwinson, Lu Yang, Stephanie Peters, Nikita Hanning, Patricio Jeraldo, Pratik D Jagtap, Joshua B Simpson, Tzu-Yi Yang, Praveen Kumar, Subina Mehta, Asha Nair, Margaret Breen-Lyles, Lakshmikanth Chikkamenahalli, Rondell P Graham, Benedicte Y De Winter, Robin Patel, Surendra Dasari, Purna C Kashyap, Timothy J Griffin, Jun Chen, Gianrico Farrugia, Matthew R Redinbo, Madhusudan Grover
Gut microbial β-glucuronidases regulate host luminal proteases and are depleted in irritable bowel syndrome. Nature microbiology 7 (5) (2022)
Anna-Lena Lamprecht, Magnus Palmblad, Jon Ison, Veit Schwämmle, Mohammad Sadnan Al Manir, Ilkay Altintas, Christopher J O Baker, Ammar Ben Hadj Amor, Salvador Capella, Paulos Charonyktakis, Michael R Crusoe, Yolanda Gil, Carole Goble, Timothy J Griffin, Paul Groth, Hans Ienasescu, Pratik D Jagtap, Matúš Kalaš, Vedran Kasalica, Ali Reza Khanteymoori, Tobias Kuhn, Hailiang Mei, Hervé Ménager, Steffen Möller, Robin A Richardson, Vincent Robert, Stian Soiland-Reyes, Robert Stevens, Szoke Szaniszlo, Suzan Verberne, Aswin Verhoeven, Katherine J Wolstencroft
Perspectives on automated composition of workflows in the life sciences. F1000Research 10 (2021)
Subina Mehta, Marie Crane, Emma Leith, Bérénice Batut, Saskia Hiltemann, Magnus Ø Arntzen, Benoit Josef Kunath, Francesco Delogu, Ray Sajulga, Praveen Kumar, James E Johnson, Timothy J Griffin, Pratik D Jagtap
ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework. F1000Research 10 (2021)
Andrew T Rajczewski, Subina Mehta, Dinh Duy An Nguyen, Björn Grüning, James E Johnson, Thomas McGowan, Timothy J Griffin, Pratik D Jagtap
A rigorous evaluation of optimal peptide targets for MS-based clinical diagnostics of Coronavirus Disease 2019 (COVID-19). Clinical proteomics 18 (1) (2021)
Subina Mehta, Praveen Kumar, Marie Crane, James E Johnson, Ray Sajulga, Dinh Duy An Nguyen, Thomas McGowan, Magnus Ø Arntzen, Timothy J Griffin, Pratik D Jagtap
Updates on metaQuantome Software for Quantitative Metaproteomics. Journal of proteome research 20 (4) (2021)
Subina Mehta, Marie Crane, Emma Leith, Bérénice Batut, Saskia Hiltemann, Magnus Ø Arntzen, Benoit Josef Kunath, Phillip B Pope, Francesco Delogu, Ray Sajulga, Praveen Kumar, James E Johnson, Timothy J Griffin, Pratik D Jagtap
ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework. F1000Research 10 (2021)
Peter S Thuy-Boun, Subina Mehta, Bjoern Andreas Gruening, Thomas McGowan, An Nguyen, Andrew T Rajczewski, James E Johnson, Timothy J Griffin, Dennis W Wolan, Pratik D Jagtap
Metaproteomics Analysis of SARS-CoV-2-Infected Patient Samples Reveals Presence of Potential Coinfecting Microorganisms. Journal of proteome research 20 (2) (2021)
Tim Van Den Bossche, Benoit Josef Kunath, Kay Schallert, Stephanie S Schäpe, Paul E Abraham, Jean Armengaud, Magnus Øverlie Arntzen, Ariane Bassignani, Dirk Benndorf, Stephan Fuchs, Richard J Giannone, Timothy J Griffin, Live Heldal Hagen, Rashi Halder, Céline Henry, Robert L Hettich, Robert Heyer, Pratik D Jagtap, Nico Jehmlich, Marlene Jensen, Catherine Juste, Manuel Kleiner, Olivier Langella, Theresa Lehmann, Emma Leith, Patrick May, Bart Mesuere, Guylaine Miotello, Samantha L Peters, Olivier Pible, Pedro T Queiros, Udo Reichl, Bernhard Y Renard, Henning Schiebenhoefer, Alexander Sczyrba, Alessandro Tanca, Kathrin Trappe, Jean-Pierre Trezzi, Sergio Uzzau, Pieter Verschaffelt, Martin Von Bergen, Paul Wilmes, Maximilian Wolf, Lennart Martens, Thilo Muth
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. Nature communications 12 (1) (2021)
Tim Van Den Bossche, Magnus Øverlie Arntzen, Dörte Becher, Dirk Benndorf, Vincent G H Eijsink, Céline Henry, Pratik D Jagtap, Nico Jehmlich, Catherine Juste, Benoit Josef Kunath, Bart Mesuere, Thilo Muth, Phillip Byron Pope, Jana Seifert, Alessandro Tanca, Sergio Uzzau, Paul Wilmes, Robert L Hettich, Jean Armengaud
The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes. Microbiome 9 (1) (2021)
Subina Mehta, Caleb W Easterly, Ray Sajulga, Robert J Millikin, Andrea Argentini, Ignacio Eguinoa, Lennart Martens, Michael R Shortreed, Lloyd M Smith, Thomas McGowan, Praveen Kumar, James E Johnson, Timothy J Griffin, Pratik D Jagtap
Precursor Intensity-Based Label-Free Quantification Software Tools for Proteomic and Multi-Omic Analysis within the Galaxy Platform. Proteomes 8 (3) (2020)
Ray Sajulga, Caleb W Easterly, Michael Riffle, Bart Mesuere, Thilo Muth, Subina Mehta, Praveen Kumar, James Johnson, Bjoern Andreas Gruening, Henning Schiebenhoefer, Carolin A Kolmeder, Stephan Fuchs, Brook L Nunn, Joel Rudney, Timothy J Griffin, Pratik D Jagtap
Survey of metaproteomics software tools for functional microbiome analysis. PloS one 15 (11) (2020)
Praveen Kumar, James E Johnson, Caleb W Easterly, Subina Mehta, Ray Sajulga, Brook L Nunn, Pratik D Jagtap, Timothy J Griffin
A Sectioning and Database Enrichment Approach for Improved Peptide Spectrum Matching in Large, Genome-Guided Protein Sequence Databases. Journal of proteome research 19 (7) (2020)
Shane L Hubler, Praveen Kumar, Subina Mehta, Caleb W Easterly, James E Johnson, Pratik D Jagtap, Timothy J Griffin
Challenges in Peptide-Spectrum Matching: A Robust and Reproducible Statistical Framework for Removing Low-Accuracy, High-Scoring Hits. Journal of proteome research 19 (1) (2019)
Pratik D Jagtap, Kevin J Viken, James Johnson, Thomas McGowan, Kathryn M Pendleton, Timothy J Griffin, Ryan C Hunter, Joel D Rudney, Maneesh Bhargava
BAL Fluid Metaproteome in Acute Respiratory Failure. American journal of respiratory cell and molecular biology 59 (5) (2019)
Mak A Saito, Erin M Bertrand, Megan E Duffy, David A Gaylord, Noelle A Held, William Judson Hervey, Robert L Hettich, Pratik D Jagtap, Michael G Janech, Danie B Kinkade, Dagmar H Leary, Matthew R McIlvin, Elisha K Moore, Robert M Morris, Benjamin A Neely, Brook L Nunn, Jaclyn K Saunders, Adam I Shepherd, Nicholas I Symmonds, David A Walsh
Progress and Challenges in Ocean Metaproteomics and Proposed Best Practices for Data Sharing. Journal of proteome research 18 (4) (2019)
Praveen Kumar, Priyabrata Panigrahi, James Johnson, Wanda J Weber, Subina Mehta, Ray Sajulga, Caleb Easterly, Brian A Crooker, Mohammad Heydarian, Krishanpal Anamika, Timothy J Griffin, Pratik D Jagtap
QuanTP: A Software Resource for Quantitative Proteo-Transcriptomic Comparative Data Analysis and Informatics. Journal of proteome research 18 (2) (2019)
Andrea Argentini, An Staes, Bjoern Andreas Gruening, Subina Mehta, Caleb W Easterly, Timothy J Griffin, Pratik D Jagtap, Francis Impens, Lennart Martens
Update on the moFF Algorithm for Label-Free Quantitative Proteomics. Journal of proteome research 18 (2) (2018)
James E Johnson, Praveen Kumar, Caleb W Easterly, Mark Esler, Subina Mehta, Arthur C Eschenlauer, Adrian D Hegeman, Pratik D Jagtap, Timothy J Griffin
Improve your Galaxy text life: The Query Tabular Tool. F1000Research (2018)
Clemens Blank, Caleb Easterly, Bjoern Gruening, James Johnson, Carolin A Kolmeder, Praveen Kumar, Damon May, Subina Mehta, Bart Mesuere, Zachary Brown, Joshua E Elias, William Judson Hervey, Thomas McGowan, Thilo Muth, Brook L Nunn, Joel Rudney, Alessandro Tanca, Timothy J Griffin, Pratik D Jagtap
Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework. Proteomes 6 (1) (2018)
James E Johnson, Praveen Kumar, Caleb W Easterly, Mark Esler, Subina Mehta, Arthur C Eschenlauer, Adrian D Hegeman, Pratik D Jagtap, Timothy J Griffin
Improve your Galaxy text life: The Query Tabular Tool. F1000Research 7 (2018)