Todd J. Treangen

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Sergey KorenAssociate Investigator, NHGRI/NIHVerified email at nih.gov
Mihai PopProfessor of Computer Science, University of Maryland, College ParkVerified email at umd.edu
Adam M. PhillippySr. Investigator, National Human Genome Research Institute, NIHVerified email at nih.gov
Brian OndovNational Library of MedicineVerified email at nih.gov
Nicholas BergmanDirector, National Bioforensic Analysis CenterVerified email at nbacc.dhs.gov
Steven SalzbergBloomberg Distinguished Professor, Johns Hopkins UniversityVerified email at jhu.edu
Ryan Leo ElworthPostdoctoral Scientist, Rice UniversityVerified email at rice.edu
Nicolae SapovalPhD Student, Department of Computer Science, Rice UniversityVerified email at rice.edu
Sonia VillapolHouston Methodist Research InstituteVerified email at houstonmethodist.org
Daniel D SommerNational Biodefense Analysis and Countermeasures CenterVerified email at nbacc.dhs.gov
Eduardo RochaCNRS, Institut PasteurVerified email at pasteur.fr
QI (Maria) WANGSystems Synthetic and Physical biology, Rice UniversityVerified email at rice.edu
Aaron DarlingIllumina Australia; Professor @ University of Technology SydneyVerified email at illumina.com
James YorkeDist. Univ. Research Prof of Math and Physics, Univ. of MarylandVerified email at umd.edu
Aleksey V ZiminAssociate Research Scientist, Department of Biomedical Engineering, Johns Hopkins UnviersityVerified email at jhu.edu
Guillaume MarcaisProject ScientistVerified email at cs.cmu.edu
Páll MelstedProfessor of Computer Science, University of IcelandVerified email at hi.is
Krista (Fritz) TernusSignature Science, LLCVerified email at signaturescience.com
Michael NuteRice UniversityVerified email at rice.edu
Irina Maljkovic BerryChief, Viral Genetics and Emerging Diseases, Walter Reed Army Institute of ResearchVerified email at mail.mil

Todd J. Treangen

Assistant Professor, Department of Computer Science, Rice University

Verified email at rice.edu - Homepage

Bioinformatics Computational Genomics Metagenomics


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Structure, function and diversity of the healthy human microbiome nature 486 (7402), 207-214, 2012	8789	2012
A framework for human microbiome research nature 486 (7402), 215-221, 2012	2099	2012
Repetitive DNA and next-generation sequencing: computational challenges and solutions TJ Treangen, SL Salzberg Nature Reviews Genetics, 2011	1769	2011
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), 1-14, 2016	1746	2016
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	1194	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	836	2012
Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes TJ Treangen, EPC Rocha PLoS genetics 7 (1), e1001284, 2011	490	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	428	2012
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	240	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	239	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	222	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), 1-15, 2014	164	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	163	2009
Bambus 2: scaffolding metagenomes S Koren, TJ Treangen, M Pop Bioinformatics 27 (21), 2964-2971, 2011	160	2011
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	115	2020
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	112	2019
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), 1-10, 2018	104	2018
M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species T Treangen, X Messeguer BMC bioinformatics 7 (1), 433, 2006	103	2006
The impact of the neisserial DNA uptake sequences on genome evolution and stability TJ Treangen, OH Ambur, T Tonjum, EPC Rocha Genome biology 9 (3), 1-17, 2008	94	2008
Infectious severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in exhaled aerosols and efficacy of masks during early mild infection OO Adenaiye, J Lai, PJ Bueno de Mesquita, F Hong, S Youssefi, ... Clinical Infectious Diseases 75 (1), e241-e248, 2022	91	2022

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