Repository scale classification and decomposition of tandem mass spectral data

by Mihir Mongia, Hosein Mohimani
Published 2021-04-01

An interpretable machine learning approach to identify mechanism of action of antibiotics

by Mihir Mongia, Mustafa Guler, Hosein Mohimani
Published 2022-06-01

A Metabolome- and Metagenome-Wide Association Network Reveals Microbial Natural Products and Microbial Biotransformation Products from the Human Microbiota

by Liu Cao, Egor Shcherbin, Hosein Mohimani
Published 2019-08-01

TransDiscovery: Discovering Biotransformation from Human Microbiota by Integrating Metagenomic and Metabolomic Data

by Donghui Yan, Liu Cao, Muqing Zhou, Hosein Mohimani
Published 2022-01-01

Large scale sequence alignment via efficient inference in generative models

by Mihir Mongia, Chengze Shen, Arash Gholami Davoodi, Guillaume Marçais, Hosein Mohimani
Published 2023-05-01

MolDiscovery: learning mass spectrometry fragmentation of small molecules

by Liu Cao, Mustafa Guler, Azat Tagirdzhanov, Yi-Yuan Lee, Alexey Gurevich, Hosein Mohimani
Published 2021-06-01

Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules

by Anna Edlund, Neha Garg, Hosein Mohimani, Alexey Gurevich, Xuesong He, Wenyuan Shi, Pieter C. Dorrestein, Jeffrey S. McLean
Published 2017-08-01

Nerpa: A Tool for Discovering Biosynthetic Gene Clusters of Bacterial Nonribosomal Peptides

by Olga Kunyavskaya, Azat M. Tagirdzhanov, Andrés Mauricio Caraballo-Rodríguez, Louis-Félix Nothias, Pieter C. Dorrestein, Anton Korobeynikov, Hosein Mohimani, Alexey Gurevich
Published 2021-10-01

Dereplication of microbial metabolites through database search of mass spectra

by Hosein Mohimani, Alexey Gurevich, Alexander Shlemov, Alla Mikheenko, Anton Korobeynikov, Liu Cao, Egor Shcherbin, Louis-Felix Nothias, Pieter C. Dorrestein, Pavel A. Pevzner
Published 2018-10-01

HypoRiPPAtlas as an Atlas of hypothetical natural products for mass spectrometry database search

by Yi-Yuan Lee, Mustafa Guler, Desnor N. Chigumba, Shen Wang, Neel Mittal, Cameron Miller, Benjamin Krummenacher, Haodong Liu, Liu Cao, Aditya Kannan, Keshav Narayan, Samuel T. Slocum, Bryan L. Roth, Alexey Gurevich, Bahar Behsaz, Roland D. Kersten, Hosein Mohimani
Published 2023-07-01

Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery

by Bahar Behsaz, Edna Bode, Alexey Gurevich, Yan-Ni Shi, Florian Grundmann, Deepa Acharya, Andrés Mauricio Caraballo-Rodríguez, Amina Bouslimani, Morgan Panitchpakdi, Annabell Linck, Changhui Guan, Julia Oh, Pieter C. Dorrestein, Helge B. Bode, Pavel A. Pevzner, Hosein Mohimani
Published 2021-05-01

Publisher Correction: Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery

by Bahar Behsaz, Edna Bode, Alexey Gurevich, Yan-Ni Shi, Florian Grundmann, Deepa Acharya, Andrés Mauricio Caraballo-Rodríguez, Amina Bouslimani, Morgan Panitchpakdi, Annabell Linck, Changhui Guan, Julia Oh, Pieter C. Dorrestein, Helge B. Bode, Pavel A. Pevzner, Hosein Mohimani
Published 2021-07-01

Spatial Molecular Architecture of the Microbial Community of a <italic toggle="yes">Peltigera</italic> Lichen

by Neha Garg, Yi Zeng, Anna Edlund, Alexey V. Melnik, Laura M. Sanchez, Hosein Mohimani, Alexey Gurevich, Vivian Miao, Stefan Schiffler, Yan Wei Lim, Tal Luzzatto-Knaan, Shengxin Cai, Forest Rohwer, Pavel A. Pevzner, Robert H. Cichewicz, Theodore Alexandrov, Pieter C. Dorrestein
Published 2016-12-01

American Gut: an Open Platform for Citizen Science Microbiome Research

by Daniel McDonald, Embriette Hyde, Justine W. Debelius, James T. Morton, Antonio Gonzalez, Gail Ackermann, Alexander A. Aksenov, Bahar Behsaz, Caitriona Brennan, Yingfeng Chen, Lindsay DeRight Goldasich, Pieter C. Dorrestein, Robert R. Dunn, Ashkaan K. Fahimipour, James Gaffney, Jack A. Gilbert, Grant Gogul, Jessica L. Green, Philip Hugenholtz, Greg Humphrey, Curtis Huttenhower, Matthew A. Jackson, Stefan Janssen, Dilip V. Jeste, Lingjing Jiang, Scott T. Kelley, Dan Knights, Tomasz Kosciolek, Joshua Ladau, Jeff Leach, Clarisse Marotz, Dmitry Meleshko, Alexey V. Melnik, Jessica L. Metcalf, Hosein Mohimani, Emmanuel Montassier, Jose Navas-Molina, Tanya T. Nguyen, Shyamal Peddada, Pavel Pevzner, Katherine S. Pollard, Gholamali Rahnavard, Adam Robbins-Pianka, Naseer Sangwan, Joshua Shorenstein, Larry Smarr, Se Jin Song, Timothy Spector, Austin D. Swafford, Varykina G. Thackray, Luke R. Thompson, Anupriya Tripathi, Yoshiki Vázquez-Baeza, Alison Vrbanac, Paul Wischmeyer, Elaine Wolfe, Qiyun Zhu, Rob Knight
Published 2018-06-01