R
Rob Knight
Researcher at University of California, San Diego
Publications - 1188
Citations - 322479
Rob Knight is an academic researcher from University of California, San Diego. The author has contributed to research in topics: Microbiome & Biology. The author has an hindex of 201, co-authored 1061 publications receiving 253207 citations. Previous affiliations of Rob Knight include Anschutz Medical Campus & University of Sydney.
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Enabling high-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing
Søren Michael Karst,Ryan M. Ziels,Rasmus Hansen Kirkegaard,Emil A. Sørensen,Daniel McDonald,Qiyun Zhu,Rob Knight,Mads Albertsen +7 more
TL;DR: In this paper, the authors report a high-throughput amplicon sequencing approach combining unique molecular identifiers (UMIs) with Oxford Nanopore Technologies or Pacific Biosciences CCS sequencing, yielding high accuracy single-molecule consensus sequences of large genomic regions.
Journal ArticleDOI
Replenishing our defensive microbes.
Luke K. Ursell,Will Van Treuren,Jessica L. Metcalf,Meg Pirrung,Andrew T. Gewirtz,Rob Knight,Rob Knight +6 more
TL;DR: Beneficial microbes associated with pathogen resistance are reviewed, highlighting the emerging role of complex microbial communities in protecting against disease and prospects for reintroducing or encouraging the growth of beneficial microbes to promote the restoration of healthy microbial ecosystems.
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Gut microbiome in serious mental illnesses: A systematic review and critical evaluation
TL;DR: This systematic review evaluates the most recent evidence of the gut microbiome in clinical populations with serious mental illness (SMI) and critically evaluates the current data, including experimental approaches.
Journal ArticleDOI
BayesFold: Rational 2° folds that combine thermodynamic, covariation, and chemical data for aligned RNA sequences
TL;DR: On a gapped alignment of 86 tRNA Phe sequences each 77 bases long, BayesFold takes 31 sec to perform the calculations; the best structure contained 95% of the base pairs in the true structure, and thetrue structure was ranked second.
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MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities
Liu Cao,Alexey Gurevich,Kelsey L. Alexander,Kelsey L. Alexander,C. Benjamin Naman,C. Benjamin Naman,Tiago Leao,Evgenia Glukhov,Tal Luzzatto-Knaan,Fernando Vargas,Robby Quinn,Amina Bouslimani,Louis-Félix Nothias,Nitin Kumar Singh,Jon G. Sanders,Rodolfo Salido Benitez,Luke R. Thompson,Luke R. Thompson,Md-Nafiz Hamid,James T. Morton,Alla Mikheenko,Alexander Shlemov,Anton Korobeynikov,Iddo Friedberg,Rob Knight,Kasthuri Venkateswaran,William H. Gerwick,Lena Gerwick,Pieter C. Dorrestein,Pieter C. Dorrestein,Pavel A. Pevzner,Hosein Mohimani,Hosein Mohimani +32 more
TL;DR: After searching millions of spectra in the Global Natural Products Social (GNPS) molecular networking infrastructure against just eight genomic and metagenomic datasets, MetaMiner discovered 31 known and seven unknown RiPPs from diverse microbial communities, including human microbiome and lichen microbiome, and microorganisms isolated from the International Space Station.