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D-Index & Metrics

Computer Science

D-Index
38
Citations
128156
World Ranking
9917
National Ranking
4164

Research.com Recognitions

  • 2014 - Fellow of Alfred P. Sloan Foundation

Overview

Ben Langmead is affiliated with Johns Hopkins University in the United States. Their research spans multiple fields with a focus on Biochemistry, Genetics and Molecular Biology, as well as Computer Science. Within these domains, their work has notable subfield concentrations in Molecular Biology, Artificial Intelligence, Genetics, Plant Science, and Cancer Research.

Langmead has contributed extensively to topics such as Genomics and Phylogenetic Studies, Algorithms and Data Compression, Gene expression and cancer classification, Chromosomal and Genetic Variations, RNA Research and Splicing, RNA modifications and cancer, and RNA and protein synthesis mechanisms.

Their publication record includes papers published in leading venues. Frequent publication venues include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Genome biology
  • Nature Communications
  • Genome Research
  • Bioinformatics

Notable recent papers include:

  • Metagenome analysis using the Kraken software suite, 2022, Nature Protocols
  • recount3: summaries and queries for large-scale RNA-seq expression and splicing, 2021, Genome biology
  • ASCOT identifies key regulators of neuronal subtype-specific splicing, 2020, Nature Communications
  • The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing, 2021, Nature Neuroscience
  • Reference flow: reducing reference bias using multiple population genomes, 2021, Genome biology

Langmead collaborates frequently with a group of co-authors including Travis Gagie, Omar Ahmed, Yanmei Dou, Taher Mun, and Andrew E. Jaffe.

Recognition for Langmead's work includes being awarded Fellow of the Alfred P. Sloan Foundation in 2014.

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

  • Improved metagenomic analysis with Kraken 2.

    Derrick E. Wood;Jennifer Lu;Ben Langmead

  • Tackling the widespread and critical impact of batch effects in high-throughput data

    Jeffrey T. Leek;Robert B. Scharpf;Héctor Corrada Bravo;Héctor Corrada Bravo;David Simcha

  • Aligning Short Sequencing Reads with Bowtie

    Ben Langmead

  • Scaling read aligners to hundreds of threads on general-purpose processors.

    Ben Langmead;Christopher Wilks;Valentin Antonescu;Rone Charles

  • Ballgown bridges the gap between transcriptome assembly and expression analysis.

    Alyssa C Frazee;Geo Pertea;Andrew E Jaffe;Ben Langmead

  • Searching for SNPs with cloud computing

    Ben Langmead;Ben Langmead;Michael C Schatz;Jimmy Lin;Mihai Pop

  • Reproducible RNA-seq analysis using recount2.

    Leonardo Collado-Torres;Abhinav Nellore;Kai Kammers;Kai Kammers;Shannon E Ellis

  • Cloud-scale RNA-sequencing differential expression analysis with Myrna

    Ben Langmead;Kasper D Hansen;Jeffrey T Leek

  • Computational pan-genomics: status, promises and challenges.

    Tobias Marschall;Manja Marz;Manja Marz;Thomas Abeel;Louis Dijkstra

  • Cloud computing and the DNA data race

    Michael C Schatz;Ben Langmead;Steven L Salzberg

  • Polyester: simulating RNA-seq datasets with differential transcript expression

    Alyssa C. Frazee;Andrew E. Jaffe;Ben Langmead;Jeffrey T. Leek

  • Cloud computing for genomic data analysis and collaboration

    Ben Langmead;Abhinav Nellore

  • Lighter: fast and memory-efficient sequencing error correction without counting

    Li Song;Liliana Florea;Liliana Florea;Ben Langmead;Ben Langmead

  • recount3: summaries and queries for large-scale RNA-seq expression and splicing

    Christopher Wilks;Shijie C Zheng;Feng Yong Chen;Rone Charles

  • ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets

    Alyssa C Frazee;Ben Langmead;Jeffrey T Leek

  • ASCOT identifies key regulators of neuronal subtype-specific splicing

    Jonathan P. Ling;Christopher Wilks;Rone Charles;Patrick J. Leavey

  • Alignment of Next-Generation Sequencing Reads

    Knut Reinert;Ben Langmead;David Weese;Dirk J. Evers

  • Dashing: fast and accurate genomic distances with HyperLogLog

    Daniel N. Baker;Ben Langmead

Frequent Co-Authors

Jeffrey T. Leek
Jeffrey T. Leek Fred Hutchinson Cancer Research Center
Andrew E. Jaffe
Andrew E. Jaffe Johns Hopkins University
Kasper D. Hansen
Kasper D. Hansen Johns Hopkins University
Michael C. Schatz
Michael C. Schatz Johns Hopkins University
Steven L. Salzberg
Steven L. Salzberg Johns Hopkins University
Giovanni Manzini
Giovanni Manzini University of Eastern Piedmont Amadeo Avogadro
Andrew P. Feinberg
Andrew P. Feinberg Johns Hopkins University
Peter White
Peter White Nationwide Children's Hospital
Elaine R. Mardis
Elaine R. Mardis The Ohio State University
Richard K. Wilson
Richard K. Wilson Nationwide Children's Hospital

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