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Author Details

Pavel A Pevzner
University of California
1987
221
71
Emma Lundberg (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37580559UniAligner: a parameter-free framework for fast sequence alignment.Nat Methods2023
35228706Multiplex de Bruijn graphs enable genome assembly from long, high-fidelity reads.Nat Biotechnol2022
35654359New Views of Old Proteins: Clarifying the Enigmatic Proteome.Mol Cell Proteomics2022
35545449Automated annotation of human centromeres with HORmon.Genome Res2022
35545447Gene prediction in the immunoglobulin loci.Genome Res2022
35727100Michael Waterman's Contributions to Computational Biology and Bioinformatics.J Comput Biol2022
35361626Variations in antibody repertoires correlate with vaccine responses.Genome Res2022
36418060Analyzing rare mutations in metagenomes assembled using long and accurate reads.Genome Res2022
36379716Fast and accurate mapping of long reads to complete genome assemblies with VerityMap.Genome Res2022
35189932viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data.Genome Biol2022
34980911Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities.Nat Biotechnol2022
33418911A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria.Mar Drugs2021
33594055Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features.Nat Commun2021
33781338Thousands of previously unknown phages discovered in whole-community human gut metagenomes.Microbiome2021
34252949CentromereArchitect: inference and analysis of the architecture of centromeres.Bioinformatics2021
33941606Erratum: Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information.Genome Res2021
34183047ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs.Microbiome2021
34176957Trace Reconstruction Problems in Computational Biology.IEEE Trans Inf Theory2021
34238936Publisher Correction: Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery.Nat Commun2021
34050176Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery.Nat Commun2021
32540955Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information.Genome Res2020
31864964De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments.Cell Syst2020
32665660Automated assembly of centromeres from ultra-long error-prone reads.Nat Biotechnol2020
32657390The string decomposition problem and its applications to centromere analysis and assembly.Bioinformatics2020
32657355TandemTools: mapping long reads and assessing/improving assembly quality in extra-long tandem repeats.Bioinformatics2020
33020656metaFlye: scalable long-read metagenome assembly using repeat graphs.Nat Methods2020
32948615V(DD)J recombination is an important and evolutionarily conserved mechanism for generating antibodies with unusually long CDR3s.Genome Res2020
32339161Automated analysis of immunosequencing datasets reveals novel immunoglobulin D genes across diverse species.PLoS Comput Biol2020
32413137Metaviral SPAdes: assembly of viruses from metagenomic data.Bioinformatics2020
31160374BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs.Genome Res2019
31672156Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads.Genome Biol2019
31510642cloudSPAdes: assembly of synthetic long reads using de Bruijn graphs.Bioinformatics2019
31629686MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities.Cell Syst2019
30833765How bioinformatics and open data can boost basic science in countries and universities with limited resources.Nat Biotechnol2019
30936562Assembly of long, error-prone reads using repeat graphs.Nat Biotechnol2019
31134072<i>De novo</i> Inference of Diversity Genes and Analysis of Non-canonical V(DD)J Recombination in Immunoglobulins.Front Immunol2019
31048319Plasmid detection and assembly in genomic and metagenomic data sets.Genome Res2019
29331515MHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection.J Proteomics2018
30056005Joint Analysis of Long and Short Reads Enables Accurate Estimates of Microbiome Complexity.Cell Syst2018
30417166A family of small, cyclic peptides buried in preproalbumin since the Eocene epoch.Plant Direct2018
30279420Dereplication of microbial metabolites through database search of mass spectra.Nat Commun2018
29358742Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra.Nat Microbiol2018
29795809American Gut: an Open Platform for Citizen Science Microbiome Research.mSystems2018
29735604Detection and analysis of ancient segmental duplications in mammalian genomes.Genome Res2018
27820803Dereplication of peptidic natural products through database search of mass spectra.Nat Chem Biol2017
28486472Single-molecule protein identification by sub-nanopore sensors.PLoS Comput Biol2017
28298430metaSPAdes: a new versatile metagenomic assembler.Genome Res2017
28242452Top-down analysis of immunoglobulin G isotypes 1 and 2 with electron transfer dissociation on a high-field Orbitrap mass spectrometer.J Proteomics2017
28978691Reconstructing Antibody Repertoires from Error-Prone Immunosequencing Reads.J Immunol2017
29046389The Antibody Repertoire of Colorectal Cancer.Mol Cell Proteomics2017
  • 1 - 50 of 221

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Collaborators

Pieter C Dorrestein
Co-authored papers 23
Nuno Bandeira
University of California
Co-authored papers 18
Alexey Gurevich
Co-authored papers 15
Vineet Bafna
University of California San Diego
Co-authored papers 14
Richard D Smith
Pacific Northwest National Laboratory
Co-authored papers 10
Haixu Tang
Indiana University
Co-authored papers 10
Xiaowen Liu
Tulane Center for Biomedical Informatics and Genomics, Tulane University
Co-authored papers 10
Sangtae Kim
Co-authored papers 9
William H Gerwick
Scripps Institution of Oceanography, University of California San Diego
Co-authored papers 9
Andrey A Mironov
Lomonosov Moscow State University
Co-authored papers 8
Si Wu
The Fourth Hospital of Hebei Medical University
Co-authored papers 8
Ljiljana Pa??a-Toli??
Pacific Northwest National Laboratory
Co-authored papers 8
Guillaume Bourque
Institute for the Advanced Study of Human Biology (ASHBi), Kyoto University
Co-authored papers 8
Alla Lapidus
Center for Algorithmic Biotechnology, Saint Petersburg State University
Co-authored papers 7
Roger S Lasken
J. Craig Venter Institute
Co-authored papers 6
Benjamin J Raphael
Princeton University
Co-authored papers 6
Mark J P Chaisson
University of Southern California
Co-authored papers 6
Rob Knight
University of California
Co-authored papers 5
Gregory Humphrey
University of California
Co-authored papers 5
Alkes L Price
Broad Institute of MIT and Harvard
Co-authored papers 4
Degui Zhi
University of Texas Health Science Center at Houston
Co-authored papers 4
Eleazar Eskin
Co-authored papers 4
Vlado Dan????k
Broad Institute
Co-authored papers 3
Peer Bork
University of Wurzburg
Co-authored papers 3
Neha Garg
Co-authored papers 3
Pedro Belda-Ferre
University of California San Diego
Co-authored papers 3
Larry Smarr
Co-authored papers 3
Jonathan H Badger
Center for Cancer Research, National Cancer Institute, National Institutes of Health
Co-authored papers 3
Dmitry Meleshko
Englander Institute for Precision Medicine, The Meyer Cancer Center
Co-authored papers 3
William J Murphy
Co-authored papers 3
Release 1.2