Todd J. Treangen

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Sergey KorenAssociate Investigator, NHGRI/NIH確認したメールアドレス: nih.gov
Adam M. PhillippyDirector, Center for Genomics and Data Science Research, NHGRI, NIH確認したメールアドレス: nih.gov
Mihai PopProfessor of Computer Science, University of Maryland, College Park確認したメールアドレス: umd.edu
Ryan Leo ElworthPostdoctoral Scientist, Rice University確認したメールアドレス: rice.edu
Brian OndovYale School of Medicine確認したメールアドレス: yale.edu
Nicolae SapovalPostdoctoral Researcher, Department of Computer Science, Rice University確認したメールアドレス: rice.edu
Nicholas BergmanDirector, National Biodefense Analysis and Countermeasures Center確認したメールアドレス: st.dhs.gov
Michael NuteRice University確認したメールアドレス: rice.edu
Steven SalzbergBloomberg Distinguished Professor, Johns Hopkins University確認したメールアドレス: jhu.edu
Sonia VillapolHouston Methodist Research Institute確認したメールアドレス: houstonmethodist.org
Bryce KilleRice University確認したメールアドレス: rice.edu
Advait BalajiRice University確認したメールアドレス: rice.edu
Kristen D. CurryPhD student in Computer Science, Rice University確認したメールアドレス: rice.edu
Eduardo RochaCNRS, Institut Pasteur確認したメールアドレス: pasteur.fr
Daniel D SommerNational Biodefense Analysis and Countermeasures Center確認したメールアドレス: nbacc.dhs.gov
Lauren B. StadlerRice University確認したメールアドレス: rice.edu
Yunxi LiuDepartment of Computer Science, Rice University確認したメールアドレス: rice.edu
Krista (Fritz) TernusSignature Science, LLC確認したメールアドレス: signaturescience.com
Aaron DarlingIndependent確認したメールアドレス: illumina.com
Páll MelstedProfessor of Computer Science, University of Iceland確認したメールアドレス: hi.is

フォロー

Todd J. Treangen

Associate Professor, Department of Computer Science, Rice University

確認したメールアドレス: rice.edu - ホームページ

Bioinformatics Computational Genomics Metagenomics


タイトル引用回数順公開年順タイトル順	引用先引用先	年
Structure, function and diversity of the healthy human microbiome nature 486 (7402), 207-214, 2012	11053	2012
Mash: fast genome and metagenome distance estimation using MinHash BD Ondov, TJ Treangen, P Melsted, AB Mallonee, NH Bergman, S Koren, ... Genome biology 17, 1-14, 2016	2870	2016
Repetitive DNA and next-generation sequencing: computational challenges and solutions TJ Treangen, SL Salzberg Nature Reviews Genetics, 2011	2115	2011
A framework for human microbiome research Nature 486 (7402), 215-221, 2012	1784	2012
The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes TJ Treangen, BD Ondov, S Koren, AM Phillippy Genome biology 15, 1-15, 2014	1637	2014
GAGE: A critical evaluation of genome assemblies and assembly algorithms SL Salzberg, AM Phillippy, A Zimin, D Puiu, T Magoc, S Koren, ... Genome research 22 (3), 557-567, 2012	902	2012
Structure, function and diversity of the healthy human microbiome HMP Consortium nature 486 (7402), 207-214, 2012	700	2012
Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes TJ Treangen, EPC Rocha PLoS genetics 7 (1), e1001284, 2011	583	2011
Deep sequencing of the oral microbiome reveals signatures of periodontal disease B Liu, LL Faller, N Klitgord, V Mazumdar, M Ghodsi, DD Sommer, ... PloS one 7 (6), e37919, 2012	496	2012
Comprehensive multi-omics analysis reveals mitochondrial stress as a central biological hub for spaceflight impact WA da Silveira, H Fazelinia, SB Rosenthal, EC Laiakis, MS Kim, ... Cell 183 (5), 1185-1201. e20, 2020	288	2020
Current progress and open challenges for applying deep learning across the biosciences N Sapoval, A Aghazadeh, MG Nute, DA Antunes, A Balaji, R Baraniuk, ... Nature Communications 13 (1), 1728, 2022	273	2022
Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences B Liu, T Gibbons, M Ghodsi, T Treangen, M Pop BMC Genomics 12 (Suppl 2), S4, 2011	265	2011
Next generation sequence assembly with AMOS TJ Treangen, DD Sommer, FE Angly, S Koren, M Pop Current Protocols in Bioinformatics 33 (1), 11.8. 1-11.8. 18, 2011	265	2011
MetAMOS: a modular and open source metagenomic assembly and analysis pipeline TJ Treangen, S Koren, DD Sommer, B Liu, I Astrovskaya, B Ondov, ... Genome Biology 14 (1), R2, 2013	240	2013
A new rhesus macaque assembly and annotation for next-generation sequencing analyses AV Zimin, AS Cornish, MD Maudhoo, RM Gibbs, X Zhang, S Pandey, ... Biology direct 9, 1-15, 2014	196	2014
Genesis, effects and fates of repeats in prokaryotic genomes TJ Treangen, AL Abraham, M Touchon, EPC Rocha FEMS microbiology reviews 33 (3), 539-571, 2009	186	2009
Emu: species-level microbial community profiling of full-length 16S rRNA Oxford Nanopore sequencing data KD Curry, Q Wang, MG Nute, A Tyshaieva, E Reeves, S Soriano, Q Wu, ... Nature methods 19 (7), 845-853, 2022	174	2022
Bambus 2: scaffolding metagenomes S Koren, TJ Treangen, M Pop Bioinformatics 27 (21), 2964-2971, 2011	173	2011
RefSeq database growth influences the accuracy of k-mer-based lowest common ancestor species identification DJ Nasko, S Koren, AM Phillippy, TJ Treangen Genome biology 19, 1-10, 2018	172	2018
Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes ND Olson, TJ Treangen, CM Hill, V Cepeda-Espinoza, J Ghurye, S Koren, ... Briefings in bioinformatics 20 (4), 1140-1150, 2019	164	2019

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