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Genetics
USA
2026
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Genetics and Molecular Biology
USA
2024

D-Index & Metrics

Best Scientists

D-Index
164
Citations
350279
World Ranking
1055
National Ranking
626

Genetics

D-Index
166
Citations
408636
World Ranking
74
National Ranking
39

Research.com Recognitions

  • 2026 - Research.com Genetics in United States Leader Award
  • 2025 - Research.com Genetics in United States Leader Award
  • 2024 - Research.com Genetics in United States Leader Award
  • 2024 - Research.com Genetics and Molecular Biology in United States Leader Award
  • 2023 - Research.com Genetics in United States Leader Award
  • 2020 - ACM Fellow For contributions to computational biology, including software for DNA sequence analysis, alignment, and genome assembly
  • 2018 - Fellow of the American Academy of Arts and Sciences
  • 2017 - Fellow of the Indian National Academy of Engineering (INAE)
  • 2013 - Fellow of the International Society for Computational Biology
  • 2004 - Fellow of the American Association for the Advancement of Science (AAAS)

Overview

Steven L. Salzberg is affiliated with Johns Hopkins University in the United States. Their research primarily focuses on the field of Biochemistry, Genetics, and Molecular Biology, with a significant number of publications spanning subfields such as Molecular Biology, Plant Science, Genetics, Ecology, and Endocrinology.

The research topics associated with Salzberg include:

  • Genomics and Phylogenetic Studies
  • RNA and protein synthesis mechanisms
  • Chromosomal and Genetic Variations
  • RNA modifications and cancer
  • Machine Learning in Bioinformatics
  • RNA Research and Splicing
  • Plant and Fungal Interactions Research

Salzberg has authored numerous papers published in a variety of scientific venues. Frequent publication outlets include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • PLoS Computational Biology
  • Nature
  • G3 Genes Genomes Genetics
  • Genome biology

Recent representative papers include:

  • "The complete sequence of a human genome" (2022) published in Science
  • "Liftoff: accurate mapping of gene annotations" (2020) published in Bioinformatics
  • "Metagenome analysis using the Kraken software suite" (2022) published in Nature Protocols
  • "The genome polishing tool POLCA makes fast and accurate corrections in genome assemblies" (2020) published in PLoS Computational Biology
  • "The complete sequence of a human Y chromosome" (2023) published in Nature

The scientist has frequently collaborated with several researchers, including:

  • Aleksey V. Zimin
  • Mihaela Pertea
  • Daniela Puiu
  • Alaina Shumate
  • Jennifer Lu

Among professional recognitions, Salzberg has received several fellowships:

  • ACM Fellow (2020) for contributions to computational biology, including software for DNA sequence analysis, alignment, and genome assembly
  • Fellow of the American Academy of Arts and Sciences (2018)
  • Fellow of the Indian National Academy of Engineering (2017)
  • Fellow of the International Society for Computational Biology (2013)
  • Fellow of the American Association for the Advancement of Science (2004)

Best Publications

  • Fast gapped-read alignment with Bowtie 2

    Ben Langmead;Steven L Salzberg;Steven L Salzberg;Steven L Salzberg

  • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

    Ben Langmead;Cole Trapnell;Mihai Pop;Steven L Salzberg

  • HISAT: a fast spliced aligner with low memory requirements

    Daehwan Kim;Ben Langmead;Steven L Salzberg

  • The Sequence of the Human Genome

    J. Craig Venter;Mark D. Adams;Eugene W. Myers;Peter W. Li

  • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

    Cole Trapnell;Cole Trapnell;Brian A Williams;Geo Pertea;Ali Mortazavi

  • TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

    Daehwan Kim;Daehwan Kim;Geo Pertea;Cole Trapnell;Cole Trapnell;Harold Pimentel

  • TopHat: discovering splice junctions with RNA-Seq

    Cole Trapnell;Lior Pachter;Steven L. Salzberg

  • Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

    Cole Trapnell;Adam Roberts;Loyal Goff;Loyal Goff;Loyal Goff;Geo Pertea

  • FLASH: Fast Length Adjustment of Short Reads to Improve Genome Assemblies

    Tanja Magoč;Steven L. Salzberg

  • StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

    Mihaela Pertea;Geo M. Pertea;Corina M. Antonescu;Tsung Cheng Chang

  • Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

    Daehwan Kim;Joseph M. Paggi;Chanhee Park;Christopher Bennett

  • Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

    Mihaela Pertea;Daehwan Kim;Geo M Pertea;Jeffrey T Leek

  • Versatile and open software for comparing large genomes

    Stefan Kurtz;Adam Phillippy;Arthur L Delcher;Michael Smoot

  • Genome sequence of the human malaria parasite Plasmodium falciparum

    Malcolm J. Gardner;Neil Hall;Eula Fung;Owen White

  • The Transcriptional Landscape of the Mammalian Genome

    P. Carninci;T. Kasukawa;S. Katayama;J. Gough

  • The complete sequence of a human genome

    Unknown

  • Kraken: ultrafast metagenomic sequence classification using exact alignments

    Derrick E Wood;Derrick E Wood;Steven L Salzberg;Steven L Salzberg

  • Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

    Brian J Haas;Brian J Haas;Steven L Salzberg;Wei Zhu;Mihaela Pertea

  • The ENCODE (ENCyclopedia of DNA elements) Project

    E. A. Feingold;P. J. Good;M. S. Guyer;S. Kamholz

  • Identifying bacterial genes and endosymbiont DNA with Glimmer

    Arthur L. Delcher;Kirsten A. Bratke;Edwin C. Powers;Steven L. Salzberg

Frequent Co-Authors

Mihaela Pertea
Mihaela Pertea Johns Hopkins University
Daniela Puiu
Daniela Puiu Johns Hopkins University
Claire M. Fraser
Claire M. Fraser University of Maryland, Baltimore
Arthur L. Delcher
Arthur L. Delcher University of Maryland, College Park
Michael C. Schatz
Michael C. Schatz Johns Hopkins University
Jonathan A. Eisen
Jonathan A. Eisen University of California, Davis
Brian J. Haas
Brian J. Haas Broad Institute
Jennifer R. Wortman
Jennifer R. Wortman Broad Institute
Mihai Pop
Mihai Pop University of Maryland, College Park
Adam M. Phillippy
Adam M. Phillippy National Institutes of Health

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