Pavel A. Pevzner | Academic Influence

Pavel A. Pevzner's AcademicInfluence.com Rankings

Pavel A. Pevzner

Computer Science

#1551

World Rank

#1605

Historical Rank

Database

#869

World Rank

#911

Historical Rank

computer-science Degrees

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Computer Science

Pavel A. Pevzner's Degrees

PhD Computer Science Moscow State University
Masters Mathematics Moscow State University

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Why Is Pavel A. Pevzner Influential?

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According to Wikipedia, Pavel Arkadevich Pevzner is the Ronald R. Taylor Professor of Computer Science and director of the NIH Center for Computational Mass Spectrometry at University of California, San Diego. He serves on the editorial board of PLoS Computational Biology and he is a member of the Genome Institute of Singapore scientific advisory board.

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Pavel A. Pevzner's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing (2012) (16203)
Initial sequencing and comparative analysis of the mouse genome. (2002) (4609)
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution (2004) (2417)
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking (2016) (2091)
Genome sequence of the Brown Norway rat yields insights into mammalian evolution (2004) (2053)
metaSPAdes: a new versatile metagenomic assembler. (2017) (1983)
Assembly of long, error-prone reads using repeat graphs (2019) (1526)
De novo identification of repeat families in large genomes (2005) (1463)
An Eulerian path approach to DNA fragment assembly (2001) (1367)
Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products (2013) (943)
Universal database search tool for proteomics (2014) (810)
Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals (1995) (755)
PepNovo: de novo peptide sequencing via probabilistic network modeling. (2005) (663)
Combinatorial Approaches to Finding Subtle Signals in DNA Sequences (2000) (630)
The complete sequence of a human genome (2021) (622)
Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads (2013) (584)
InsPecT: identification of posttranslationally modified peptides from tandem mass spectra. (2005) (571)
Computational molecular biology - an algorithmic approach (2000) (550)
De Novo Peptide Sequencing via Tandem Mass Spectrometry (1999) (545)
How to apply de Bruijn graphs to genome assembly. (2011) (539)
Dynamics of Mammalian Chromosome Evolution Inferred from Multispecies Comparative Maps (2005) (534)
Genome rearrangements and sorting by reversals (1993) (515)
American Gut: an Open Platform for Citizen Science Microbiome Research (2018) (496)
Short read fragment assembly of bacterial genomes. (2008) (495)
Corepressor-Dependent Silencing of Chromosomal Regions Encoding Neuronal Genes (2002) (486)
Genome-scale evolution: reconstructing gene orders in the ancestral species. (2002) (462)
Telomere-to-telomere assembly of a complete human X chromosome (2019) (450)
Spectral probabilities and generating functions of tandem mass spectra: a strike against decoy databases. (2008) (400)
Sorting by Transpositions (1998) (391)
hybridSPAdes: an algorithm for hybrid assembly of short and long reads (2016) (391)
Finding composite regulatory patterns in DNA sequences (2002) (372)
Genome rearrangements in mammalian evolution: lessons from human and mouse genomes. (2003) (359)
plasmidSPAdes: Assembling Plasmids from Whole Genome Sequencing Data (2016) (359)
Transforming men into mice (polynomial algorithm for genomic distance problem) (1995) (353)
Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution (2003) (343)
Mammalian phylogenomics comes of age. (2004) (318)
Gene recognition via spliced sequence alignment. (1996) (317)
1-Tuple DNA sequencing: computer analysis. (1989) (304)
De novo fragment assembly with short mate-paired reads: Does the read length matter? (2009) (296)
Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals (1995) (288)
Age-related changes in human crystallins determined from comparative analysis of post-translational modifications in young and aged lens: does deamidation contribute to crystallin insolubility? (2006) (267)
metaFlye: scalable long-read metagenome assembly using repeat graphs (2019) (259)
Reconstructing the genomic architecture of ancestral mammals: lessons from human, mouse, and rat genomes. (2004) (259)
De novo repeat classification and fragment assembly (2004) (243)
Identification of post-translational modifications by blind search of mass spectra (2005) (241)
The Generating Function of CID, ETD, and CID/ETD Pairs of Tandem Mass Spectra: Applications to Database Search* (2010) (238)
Fragment assembly with short reads (2004) (231)
Clustering millions of tandem mass spectra. (2008) (225)
Does trypsin cut before proline? (2008) (219)
Efficient de novo assembly of single-cell bacterial genomes from short-read data sets (2011) (206)
Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation. (2007) (203)
Assembly of long error-prone reads using de Bruijn graphs (2016) (201)
Splicing graphs and EST assembly problem (2002) (199)
Whole-genome analysis of Alu repeat elements reveals complex evolutionary history. (2004) (199)
Ancestral reconstruction of segmental duplications reveals punctuated cores of human genome evolution (2007) (196)
Finding motifs in the twilight zone (2002) (196)
De novo peptide sequencing and identification with precision mass spectrometry. (2007) (190)
Assembly of long, error-prone reads using repeat graphs (2018) (189)
Imaging mass spectrometry of intraspecies metabolic exchange revealed the cannibalistic factors of Bacillus subtilis (2010) (181)
False discovery rates of protein identifications: a strike against the two-peptide rule. (2009) (178)
Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages. (2005) (171)
Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum (2013) (166)
Dereplication of peptidic natural products through database search of mass spectra (2016) (160)
Dereplication of microbial metabolites through database search of mass spectra (2018) (158)
Finding subtle motifs by branching from sample strings (2003) (145)
Efficiency of database search for identification of mutated and modified proteins via mass spectrometry. (2001) (144)
A novel method for multiple alignment of sequences with repeated and shuffled elements. (2004) (144)
Fragment assembly with double-barreled data (2001) (142)
Target-Decoy Approach and False Discovery Rate: When Things May Go Wrong (2011) (142)
Breakpoint graphs and ancestral genome reconstructions. (2009) (142)
Characterization of Cyanobacterial Hydrocarbon Composition and Distribution of Biosynthetic Pathways (2014) (142)
Deconvolution and Database Search of Complex Tandem Mass Spectra of Intact Proteins (2010) (136)
Whole-Genome Sequencing and Assembly with High-Throughput, Short-Read Technologies (2007) (136)
Single Cell Genome Amplification Accelerates Identification of the Apratoxin Biosynthetic Pathway from a Complex Microbial Assemblage (2011) (134)
Protein identification by spectral networks analysis (2007) (133)
Genome sequence comparison and scenarios for gene rearrangements: a test case. (1995) (131)
Sorting by Reversals: Genome Rearrangements in Plant Organelles and Evolutionary History of X Chromosome (1995) (130)
Error correction of high-throughput sequencing datasets with non-uniform coverage (2011) (129)
Top-down proteomics reveals a unique protein S-thiolation switch in Salmonella Typhimurium in response to infection-like conditions (2013) (126)
Automated de novo protein sequencing of monoclonal antibodies (2008) (114)
Synergistic allelochemicals from a freshwater cyanobacterium (2010) (114)
Comparative proteogenomics: combining mass spectrometry and comparative genomics to analyze multiple genomes. (2008) (111)
Sequence similarity‐driven proteomics in organisms with unknown genomes by LC‐MS/MS and automated de novo sequencing (2007) (111)
Automated Genome Mining of Ribosomal Peptide Natural Products (2014) (110)
Linguistics of nucleotide sequences. I: The significance of deviations from mean statistical characteristics and prediction of the frequencies of occurrence of words. (1989) (106)
DNA physical mapping and alternating Eulerian cycles in colored graphs (1995) (106)
The Fragile Breakage versus Random Breakage Models of Chromosome Evolution (2006) (103)
Towards DNA Sequencing Chips (1994) (103)
Protein Identification Using Top-Down Spectra* (2012) (101)
Mutation-tolerant protein identification by mass-spectrometry (2000) (100)
A new approach to sequence comparison: normalized sequence alignment (2001) (99)
ExSPAnder: a universal repeat resolver for DNA fragment assembly (2014) (94)
Comment on "Protein Sequences from Mastodon and Tyrannosaurus rex Revealed by Mass Spectrometry" (2008) (92)
The Alternative Splicing Gallery (ASG): bridging the gap between genome and transcriptome. (2004) (92)
Approximation Algorithms for Multiple Sequence Alignment (1994) (91)
Complete genomic and epigenetic maps of human centromeres (2021) (90)
Dereplication and De Novo Sequencing of Nonribosomal Peptides (2009) (90)
Cytotoxic veraguamides, alkynyl bromide-containing cyclic depsipeptides from the marine cyanobacterium cf. Oscillatoria margaritifera. (2011) (89)
Sharing and community curation of mass spectrometry data with GNPS (2016) (87)
Metaviral SPAdes: assembly of viruses from metagenomic data (2020) (85)
Peptide sequence tags for fast database search in mass-spectrometry. (2005) (83)
Interpretation of tandem mass spectra obtained from cyclic nonribosomal peptides. (2009) (82)
DRIMM-Synteny: decomposing genomes into evolutionary conserved segments (2010) (81)
N-terminal Protein Processing: A Comparative Proteogenomic Analysis* (2013) (80)
Computing Has Changed Biology—Biology Education Must Catch Up (2009) (80)
Spectral Archives: Extending Spectral Libraries to Analyze both Identified and Unidentified Spectra (2011) (79)
Plasmid detection and assembly in genomic and metagenomic data sets (2019) (78)
Open combinatorial problems in computational molecular biology (1995) (78)
Paired de Bruijn Graphs: A Novel Approach for Incorporating Mate Pair Information into Genome Assemblers (2011) (77)
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes (2014) (76)
Improved chips for sequencing by hybridization. (1991) (76)
NRPquest: Coupling Mass Spectrometry and Genome Mining for Nonribosomal Peptide Discovery (2014) (76)
metaSPAdes: A New Versatile de novo Metagenomics Assembler (2016) (75)
Why are de Bruijn graphs useful for genome assembly? (2011) (74)
Computational Molecular Biology (2000) (73)
Decoding the fine-scale structure of a breast cancer genome and transcriptome. (2006) (71)
Peptide Sequence Tags for Fast Database Search in Mass-Spectrometry (2005) (71)
U Subtle motifs: defining the limits of motif finding algorithms (2002) (71)
Interpreting top-down mass spectra using spectral alignment. (2008) (71)
Multiple filtration and approximate pattern matching (1995) (71)
A new approach to fragment assembly in DNA sequencing (2001) (71)
UniNovo: a universal tool for de novo peptide sequencing (2013) (68)
To cut…or not to cut (applications of comparative physical maps in molecular evolution) (1996) (67)
Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform (2013) (62)
Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra (2018) (60)
Spectral Dictionaries (2009) (59)
Thousands of previously unknown phages discovered in whole-community human gut metagenomes (2020) (59)
SEQuel: improving the accuracy of genome assemblies (2012) (59)
Sorting permutations by tanspositions (1995) (57)
Identification of post-translational modifications via blind search of mass-spectra (2005) (57)
Shotgun Protein Sequencing (2007) (57)
Multi-break rearrangements and chromosomal evolution (2008) (56)
Mutation-Tolerant Protein Identification by Mass Spectrometry (2000) (56)
Shotgun protein sequencing by tandem mass spectra assembly. (2004) (54)
Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features (2021) (54)
Sorting Permutations by Transpositions (1995) (54)
Dereplication, sequencing and identification of peptidic natural products: from genome mining to peptidogenomics to spectral networks. (2016) (52)
Colored de Bruijn Graphs and the Genome Halving Problem (2007) (50)
Single-molecule protein identification by sub-nanopore sensors (2016) (49)
Rapid validation of protein identifications with the borderline statistical confidence via de novo sequencing and MS BLAST searches. (2006) (45)
Educating biologists in the 21st century: bioinformatics scientists versus bioinformatics technicians (2004) (45)
IgRepertoireConstructor: a novel algorithm for antibody repertoire construction and immunoproteogenomics analysis (2015) (44)
The convergence of cytogenetics and rearrangement-based models for ancestral genome reconstruction. (2006) (44)
Combinatorial algorithms for design of DNA arrays. (2002) (44)
Microinversions in mammalian evolution (2006) (43)
Bioinformatics Algorithms: An Active Learning Approach (2014) (42)
Performance-guarantee gene predictions via spliced alignment. (1998) (42)
De novo protein sequencing by combining top-down and bottom-up tandem mass spectra. (2014) (42)
Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities (2022) (42)
Genome-Wide Analysis of Bacterial Promoter Regions (2002) (41)
Spectral Profiles, a Novel Representation of Tandem Mass Spectra and Their Applications for de Novo Peptide Sequencing and Identification* (2009) (40)
Unrestrictive identification of post-translational modifications through peptide mass spectrometry (2006) (40)
Cycloquest: identification of cyclopeptides via database search of their mass spectra against genome databases. (2011) (40)
Are There Rearrangement Hotspots in the Human Genome? (2007) (39)
Reconstructing tumor amplisomes (2004) (39)
Quantitative analysis of human salivary gland‐derived intact proteome using top‐down mass spectrometry (2014) (38)
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads (2019) (38)
Sequencing cyclic peptides by multistage mass spectrometry (2011) (38)
Multiple alignment, communication cost, and graph matching (1992) (38)
Top-down analysis of immunoglobulin G isotypes 1 and 2 with electron transfer dissociation on a high-field Orbitrap mass spectrometer. (2017) (38)
Identification of ultramodified proteins using top-down tandem mass spectra. (2013) (37)
Reconstructing the genomic architecture of mammalian ancestors using multispecies comparative maps (2003) (37)
MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities. (2019) (37)
BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs (2019) (37)
Transforming men into mice: the Nadeau-Taylor chromosomal breakage model revisited (2003) (37)
Unexpected Diversity of Signal Peptides in Prokaryotes (2012) (36)
InsPecT : Fast and accurate identification of post-translationally modified peptides from tandem mass spectra (2005) (36)
Reconstructing tumor genome architectures (2003) (36)
Single Cells within the Puerto Rico Trench Suggest Hadal Adaptation of Microbial Lineages (2015) (35)
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 (2020) (35)
TruSPAdes: barcode assembly of TruSeq synthetic long reads (2016) (35)
Assembling short reads from jumping libraries with large insert sizes (2015) (34)
Linguistics of nucleotide sequences. II: Stationary words in genetic texts and the zonal structure of DNA. (1989) (33)
How many signal peptides are there in bacteria? (2013) (32)
Automated assembly of centromeres from ultra-long error-prone reads (2020) (32)
Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen (2016) (32)
Detection and analysis of ancient segmental duplications in mammalian genomes (2018) (31)
Mutation in Rpa1 results in defective DNA double-strand break repair, chromosomal instability, and cancer in mice (2004) (31)
Las Vegas algorithms for gene recognition: suboptimal and error-tolerant spliced alignment (1997) (31)
Identifying repeat domains in large genomes (2006) (31)
Multiplex de novo sequencing of peptide antibiotics. (2011) (31)
Analyzing protease specificity and detecting in vivo proteolytic events using tandem mass spectrometry (2010) (30)
Shotgun Protein Sequencing : Assembly of Tandem Mass Spectra from Mixtures of Modified Proteins (2007) (30)
Mass spectrometry-based neuropeptidomics of secretory vesicles from human adrenal medullary pheochromocytoma reveals novel peptide products of prohormone processing. (2010) (29)
Statistical distance between texts and filtration methods in sequence comparison (1992) (29)
Gapped Spectral Dictionaries and Their Applications for Database Searches of Tandem Mass Spectra* (2010) (29)
Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer. (2015) (29)
What is the difference between the breakpoint graph and the de Bruijn graph? (2014) (28)
Proceedings of the second annual international conference on Computational molecular biology (1998) (28)
Reconstructing Antibody Repertoires from Error-Prone Immunosequencing Reads (2017) (28)
Multi-spectra peptide sequencing and its applications to multistage mass spectrometry (2008) (27)
De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra. (2015) (27)
Comparative genomics reveals birth and death of fragile regions in mammalian evolution (2010) (26)
Finding Weak Motifs in DNA Sequences (2001) (26)
Whole genome duplications, multi-break rearrangements, and genome halving problem (2007) (25)
Towards a Computational Theory of Genome Rearrangements (1995) (25)
TandemTools: mapping long reads and assessing/improving assembly quality in extra-long tandem repeats (2020) (25)
Border Length Minimization in DNA Array Design (2002) (25)
A family of small, cyclic peptides buried in preproalbumin since the Eocene epoch (2018) (25)
Positional sequencing by hybridization (1996) (24)
De novo assembly of bacterial genomes from single cells (2011) (23)
Representing and comparing protein structures as paths in three-dimensional space (2006) (23)
MHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection. (2018) (22)
Fidelity Probes for DNA Arrays (1999) (22)
Engineering a scalable placement heuristic for DNA probe arrays (2003) (22)
Neuropeptidomic Components Generated by Proteomic Functions in Secretory Vesicles for Cell–Cell Communication (2010) (22)
Gene hunting without sequencing genomic clones: finding exon boundaries in cDNAs. (1998) (21)
Transforming Men into Mice (1996) (21)
Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery (2021) (21)
Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly (2012) (21)
Whole Genome Duplications and Contracted Breakpoint Graphs (2007) (20)
Detailed four-way comparative mapping and gene order analysis of the canine ctvm locus reveals evolutionary chromosome rearrangements. (2004) (19)
A new approach to evaluating statistical significance of spectral identifications. (2013) (19)
De novo Inference of Diversity Genes and Analysis of Non-canonical V(DD)J Recombination in Immunoglobulins (2019) (19)
Multiple Sequence Comparison and Consistency on Multipartite Graphs (1995) (19)
Nucleotide Sequences Versus Markov Models (1992) (19)
Proceedings of the Sixth Annual International Conference on Computational Biology, RECOMB 2002, Washington, DC, USA, April 18-21, 2002 (2002) (19)
De Novo Peptide Sequencing Reveals Many Cyclopeptides in the Human Gut and Other Environments. (2019) (18)
centroFlye: Assembling Centromeres with Long Error-Prone Reads (2019) (18)
Algorithms and software for support of gene identification experiments (1998) (18)
Gray code masks for sequencing by hybridization. (1994) (18)
How bioinformatics and open data can boost basic science in countries and universities with limited resources (2019) (18)
Comparative genomics reveals unusually long motifs in mammalian genomes (2006) (17)
Trace Reconstruction Problems in Computational Biology (2020) (17)
EULER-PCR: Finishing Experiments for Repeat Resolution (2001) (16)
Multiplex de Bruijn graphs enable genome assembly from long, high-fidelity reads (2022) (16)
De Novo Sequencing of Nonribosomal Peptides (2008) (16)
Manifold de Bruijn Graphs (2014) (16)
cloudSPAdes: assembly of synthetic long reads using de Bruijn graphs (2019) (16)
A Fast Filtration Algorithm for the Substring Matching Problem (1993) (16)
A New Approach to Protein Identification (2006) (15)
The string decomposition problem and its applications to centromere analysis and assembly (2020) (15)
Immunoglobulin Classification Using the Colored Antibody Graph (2015) (15)
Genome inhomogeneity is determined mainly by WW and SS dinucleotides (1991) (15)
Extendable words in nucleotide sequences (1992) (14)
A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria (2021) (14)
Matrix Longest Common Subsequence Problem, Duality and Hibert Bases (1992) (14)
Proceedings of the seventh annual international conference on Research in computational molecular biology (2003) (14)
SpectroGene: A Tool for Proteogenomic Annotations Using Top-Down Spectra. (2016) (13)
Emerging opportunities for theoretical computer science (1997) (13)
Multiplex De Novo Sequencing of Peptide Antibiotics (2011) (12)
Thousands of previously unknown phages discovered in whole-community human gut metagenomes (2021) (12)
Scalable Heuristics for Design of DNA Probe Arrays (2004) (12)
From de Bruijn Graphs to Rectangle Graphs for Genome Assembly (2012) (12)
Spliced Alignment: A New Approach to Gene Recognition (1996) (12)
Generalized Sequence Alignment and Duality (1993) (11)
Computational Intelligence Methods for Bioinformatics and Biostatistics (2012) (11)
Decoding Synteny Blocks and Large-Scale Duplications in Mammalian and Plant Genomes (2009) (11)
Bioinformatics for Biologists (2011) (11)
TandemMapper and TandemQUAST: mapping long reads and assessing/improving assembly quality in extra-long tandem repeats (2019) (11)
Parametric Recomuting in Alignment Graphs (1994) (11)
Assembly of Long Error-Prone Reads and Repeat Classification (2018) (11)
Algorithm for identification of fusion proteins via mass spectrometry. (2008) (11)
Generation of lineage-resolved complete metagenome-assembled genomes by precision phasing (2021) (10)
Blocked Pattern Matching Problem and Its Applications in Proteomics (2011) (10)
Erratum: 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. (2021) (10)
MORPH-PRO: a novel algorithm and web server for protein morphing (2012) (10)
Ultra-low input single tube linked-read library method enables short-read NGS systems to generate highly accurate and economical long-range sequencing information for de novo genome assembly and haplotype phasing (2019) (10)
Joint Analysis of Long and Short Reads Enables Accurate Estimates of Microbiome Complexity. (2018) (10)
Automated analysis of immunosequencing datasets reveals novel immunoglobulin D genes across diverse species (2020) (9)
Life after MOOCs (2015) (9)
Top-down analysis of protein samples by de novo sequencing techniques (2016) (9)
Correcting Base-Assignment Errors in Repeat Regions of Shotgun Assembly (2007) (9)
Proceedings of the Fourth Annual International Conference on Computational Molecular Biology, RECOMB 2000, Tokyo, Japan, April 8-11, 2000 (1997) (8)
DNA Physical Mapping, Flows in Networks and Minimum Cycles Mean in Graphs (1992) (8)
The complexity of gene placement (2001) (8)
Protein Identification via Spectral Networks Analysis. (2007) (7)
V(DD)J recombination is an important and evolutionarily conserved mechanism for generating antibodies with unusually long CDR3s (2020) (7)
Software for DNA sequencing by hybridization (1997) (7)
Toward an Individual Approach to Methadone Therapy of Heroin Addicts (2006) (7)
CentromereArchitect: inference and analysis of the architecture of centromeres (2021) (6)
IgEvolution: clonal analysis of antibody repertoires (2019) (6)
Parametric Recomputing in Alignment Graphs (2005) (6)
The String Decomposition Problem and its Applications to Centromere Assembly (2019) (6)
[Effective method for physical mapping the DNA molecule]. (1987) (6)
Multiple Alignment with Guaranteed Error Bounds and Communication Cost (1992) (6)
Characterization of Multi-Charge Mass Spectra for Peptide Sequencing (2006) (6)
The Antibody Repertoire of Colorectal Cancer* (2017) (6)
viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data (2022) (5)
Rearrangements of DNA Sequences and SBH (1994) (5)
New Views of Old Proteins: Clarifying the Enigmatic Proteome (2021) (5)
Multiple Sequence Comparison and n-Dimensional Image Reconstruction (1993) (5)
Circular Permutations and Genome Shuffling (2000) (5)
DNASUN: a package of computer programs for the biotechnology laboratory (1995) (5)
De Novo Peptide Sequencing Reveals a Vast Cyclopeptidome in Human Gut and Other Environments (2019) (5)
LJA: Assembling Long and Accurate Reads Using Multiplex de Bruijn Graphs (2020) (4)
Modeling and Characterization of Multi-charge Mass Spectra for Peptide Sequencing (2005) (4)
RECOMB 98 : proceedings of the Second Annual International Conference on Computational Molecular Biology : March 22-25, 1998, Holiday Inn Manhattan, New York, NY (1998) (4)
MetaRiPPquest: A Peptidogenomics Approach for the Discovery of Ribosomally Synthesized and Post-translationally Modified Peptides (2017) (4)
Combinatorial methods for DNA mapping and sequencing. (1995) (4)
Data Integration in the Life Sciences (2004) (4)
mosaicFlye: Resolving long mosaic repeats using long error-prone reads (2020) (4)
Automated annotation of human centromeres with HORmon (2022) (4)
RECOMB 99 : proceedings of the Third annual international conference on computational molecular biology : April 11-14, 1999, Hotel de Lyon Metropole, Lyon, France (1999) (4)
RECOMB 2000 : proceedings of the Fourth annual international conference on computational molecular biology : April 8-11, 2000, Tokyo, Japan (2000) (4)
Decoding the Genomic Architecture of Mammalian and Plant Genomes: Synteny Blocks and Large-scale Duplications (2010) (4)
Graphs of restrictions and DNA physical mapping (1988) (4)
quencing and identi fi cation of peptidic natural products : from genome mining to peptidogenomics to spectral networks (2015) (3)
Identification of Ultramodified Proteins Using Top-Down Spectra (2013) (3)
Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra (2018) (3)
Proteogenomics (2014) (3)
Unique genomic features of crAss-like phages, the dominant component of the human gut virome (2020) (3)
Reconstructing Antibody Repertoires from Error-Prone Immunosequencing Datasets (2017) (3)
Synergistic allelochemicals from a freshwater (2010) (3)
ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs (2021) (3)
Research in Computational Molecular Biology, 9th Annual International Conference, RECOMB 2005, Cambridge, MA, USA, May 14-18, 2005, Proceedings (2005) (3)
Bioinformatics for Biologists: Genome reconstruction: a puzzle with a billion pieces (2011) (3)
[Optimal chips for megabase DNA sequencing]. (1991) (3)
Shotgun Protein Sequencing of Post-translationally Modified Snake Venom Proteins (2006) (2)
Long Reads Enable Accurate Estimates of Complexity of Metagenomes (2018) (2)
Assembling puzzles from preassembled blocks. (2001) (2)
Variations in antibody repertoires correlate with vaccine responses (2021) (2)
Special issue on computational molecular biology (2007) (2)
Application of de novo sequencing tools to study abiogenic peptide formations by tandem mass spectrometry. The case of homo-peptides from glutamic acid complicated by substitutions of hydrogen by sodium or potassium atoms. (2014) (2)
Using bioinformatics training to boost research capacities in resource-limited regions (2018) (2)
Research in Computational Molecular Biology, 10th Annual International Conference, RECOMB 2006, Venice, Italy, April 2-5, 2006, Proceedings (2006) (2)
Genome Halving Problem Revisited (2004) (2)
Competencies: a cure for pre-med curriculum. (2011) (2)
SST versus EST in gene recognition (1998) (2)
Fast and accurate mapping of long reads to complete genome assemblies with VerityMap (2022) (2)
Combinatorial pattern matching : 25th annual symposium, CPM 2014, Moscow, Russia, June 16-18, 2014 : proceedings (2014) (2)
Research in Computational Molecular Biology (vol. # 3500) : 9th Annual International Conference, RECOMB 2005, Cambridge, MA, USA, May 14-18, 2005, Proceedings (2005) (2)
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads (2019) (2)
TandemAligner: a new parameter-free framework for fast sequence alignment (2022) (2)
HORmon: automated annotation of human centromeres (2021) (2)
MS-DPR: An Algorithm for Computing Statistical Significance of Spectral Identifications of Non-linear Peptides (2012) (1)
The Genome 10K Project: A Way Forward Further (2015) (1)
Combinatorial Pattern Matching (2014) (1)
Computational Challenges In Comparative Genomics: Gene Family Evolution, Ancestral Genome Reconstruction, And Applications To Human Genetics (2008) (1)
Cycloquest: Identification of Cyclopeptides via Database Search of Their Mass Spectra against Genome Databases (vol 10, pg 4505, 2010) (2011) (1)
Duplications and genome rearrangements (2007) (1)
A Shortest-Cycle Based Heuristics for the Multiple Genome Rearrangement Problem (2008) (1)
Dereplication of microbial metabolites through database search of mass spectra (2018) (1)
What is the difference between the breakpoint graph and the de Bruijn graph? (2014) (1)
Compressed Subsequence Matching and Packed Tree Coloring (2014) (1)
Limited Lifespan of Fragile Regions in Mammalian Evolution (2010) (1)
DNA, DINOSAURS, AND METAGENOMICS: A NEW TOOL FOR MASS IDENTIFICATION OF DNA FROM FOSSIL BONE (2012) (1)
Engineering in genomics/spl minus/combinatorial methods for DNA physical mapping (1994) (1)
Modified Proteins via Mass Spectrometry Efficiency of Database Search for Identification of Mutated and References (2001) (1)
MosaicFlye: Resolving Long Mosaic Repeats Using Long Reads (2020) (1)
Genomic insights into secondary metabolism of the natural product-rich cyanobacterium Moorea bouillonii (2012) (1)
Research in Computational Molecular Biology (2008) (1)
DNA STATISTICS, OVERLAPPING WORD PARADOX AND CONWAY EQUATION (1993) (1)
Analyzing rare mutations in metagenomes assembled using long and accurate reads (2022) (1)
Genome analysis plasmidSPAdes: assembling plasmids from whole genome sequencing data (2016) (1)
MORPH-PRO: a novel algorithm and web server for protein morphing (2013) (1)
Gene prediction in the immunoglobulin loci (2022) (1)
Algorithms for phylogenetic tree reconstruction based on genome rearrangements (2002) (1)
Gene Hunting without Sequencing Genomis Clones: the "Twenty Questions" game with genes (1997) (0)
Book Review (0)
1 Modification-tolerant Shotgun Protein Sequencing of a Snake Venom Proteome (2007) (0)
Combinatorial methods in computational genomics: mammalian phylogenetics using microinversions and fragment assembly with short reads (2008) (0)
Mass spectrometric and bioinformatics approaches to characterizing of cyclic non- ribosomal peptides and ribosomally encoded peptide antibiotic A thesis submitted in partial satisfaction of the requirements for the degree Master of Science in Chemistry (2009) (0)
Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities (2022) (0)
Multiple Sequence Comparison and Consistency on MultipartiteGraphsMartin Vingron ( 1 ) and (1995) (0)
Call for Submissions - CanaDAM 2007 (2007) (0)
EP5 Mining Bottom-Up and Top-Down Datasets for Predictable and not so Predictable Post-Translational Modifications. (2007) (0)
Filtration efficiency in rapid homology search statistical algorithms (1990) (0)
3 Pairwise alignment (2010) (0)
Michael Waterman's Contributions to Computational Biology and Bioinformatics (2022) (0)
Method Identifying repeat domains in large genomes (2006) (0)
Bioinformatics for Biologists: Glossary (2011) (0)
Selected Papers from RECOMB'97 - Preface (1997) (0)
Circular Permutations and Genome (0)
COMPUTATIONAL CHALLENGES IN COMPARATIVE GENOMICS – Session Introduction (2009) (0)
Final Report: Combinatorial Methods for Gene Recognition, March 1, 1997 - August 31, 1999 (2000) (0)
Publisher Correction: Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery (2021) (0)
Special Issue: Professor Michael Waterman's 80th Birthday, Part 1 (2022) (0)
IgTools: a toolkit for analysis of antibody repertoire from immunosequencing and mass spectra data (2016) (0)
Keynote: De novo sequencing of novel peptide antibiotics by tandem mass spectrometry (2012) (0)
the read length matter? De novo fragment assembly with short mate-paired reads: Does (2008) (0)
Dynamic programming: one algorithmic key for many biological locks (2011) (0)
ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs (2021) (0)
SST versus EST in Gene Recognition (Invited Paper). (1998) (0)
Bioinformatics for Biologists: REFERENCES (2011) (0)
Pevzner Assembling Puzzles from Preassembled Blocks (2001) (0)
Comparative analysis of immunoglobulin IGHD genes in vertebrates (2019) (0)
Book Review (0)
Supplementary Materials for : Multiplex De Novo Sequencing of Peptide Antibiotics (2011) (0)
The antibody repertoire of colorectal cancer (2017) (0)
Human and Mouse Genomes Genome Rearrangements in Mammalian Evolution : Lessons From data (2003) (0)
Combinatorial methods for gene recognition (1997) (0)
Revealing how variations in antibody repertoires (2022) (0)
Some combinatorial problems concerning dna arrays (2001) (0)
Special RECOMB 2002 Issue (2004) (0)
Single Molecule Identification Against Proteomes using Sub-Nanometer Pores (2017) (0)
Decoding the fine-scale structure of a breast cancer genome and data (2006) (0)
A novel toolkit for analysis of adaptive immune repertoires using sequencing and mass spectra data (2016) (0)
Book Review (1987) (0)
Automated assembly of centromeres from ultra-long error-prone reads (2020) (0)
Proceedings of the 5th Annual Conference on Research in Computational Molecular Biology (RECOMB2001) (2001) (0)
Director's Letter Mission and Goals Institute Partners Organizing Committee for Emphasis Year Scientific Advisory Committee 20042005 Local Scientific Advisory Committee Program Participa Tion Workshop 4: Emerging Genomic Technologies and Data Inte Gration Problems: February 2124, 2005 (0)
Guest Editors' foreword (2001) (0)
Lessons From Human , Mouse , and Rat Genomes Reconstructing the Genomic Architecture of Ancestral Mammals : data (2004) (0)
Telomere-to-telomere assembly of a complete human X chromosome (2020) (0)
Foreword (2002) (0)
Georgy Maksimovich Adelson-Velsky (obituary) (2014) (0)
[Paths in graphs and selection of oligonucleotide linkers]. (1989) (0)
SpLitteR: Diploid genome assembly using linked TELL-Seq reads and assembly graphs (2022) (0)
Preface: Special RECOMB'97 Issues (1997) (0)
Peptide Identification of Tandem Mass Spectrometry from Quadrupole Time-of-Flight Mass Spectrometers A thesis submitted in partial satisfaction of the requirements for the degree Master of Science in Computer Science by Kuang-Ying Hsi (2009) (0)
Identifying protease cleavage sites by label‐free mass spectrometry (2010) (0)
Preface: 2nd Satellite Meeting on Bioinformatics Education, Research in Computational Molecular Biology (RECOMB-BE 2010) (2011) (0)
Bioinformatics for Biologists: Preface (2011) (0)
different lineages reveal highly variable rates of genomic rearrangements across Comparative architectures of mammalian and chicken genomes data (2004) (0)
genomics platform a biofilm in a hospital sink using a high-throughput single-cell recovered from Porphyromonas gingivalis Genome of the pathogen Material (2013) (0)
Genomic Sequence ComparisonPavel (1995) (0)
Combinatorial approaches to signal finding and gene finding in dna sequences (2000) (0)
Tree-Guided Construction of Antibody Repertoires and Its Applications to CDR Annotation (2020) (0)
viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data (2022) (0)
Y-Tools: a novel toolkit for analysis of antibody repertoires using Rep-seq data (2016) (0)
Bioinformatics: a Servant or the Queen of Molecular Biology? (2019) (0)
No immunity for Moscow (1989) (0)

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