Todd J. Treangen
Todd J. Treangen
Assistant Professor, Department of Computer Science, Rice University
Verified email at rice.edu - Homepage
Title
Cited by
Cited by
Year
Structure, function and diversity of the healthy human microbiome
Human Microbiome Project Consortium
nature 486 (7402), 207, 2012
71302012
A framework for human microbiome research
BA Methé, KE Nelson, M Pop, HH Creasy, MG Giglio, C Huttenhower, ...
nature 486 (7402), 215, 2012
17382012
Repetitive DNA and next-generation sequencing: computational challenges and solutions
TJ Treangen, SL Salzberg
Nature Reviews Genetics, 2011
15082011
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
11472016
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 (11), 1-15, 2014
9132014
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
7742012
Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes
TJ Treangen, EPC Rocha
PLoS genetics 7 (1), e1001284, 2011
4442011
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
3772012
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
2182011
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
2182011
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
2002013
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
1542009
Bambus 2: scaffolding metagenomes
S Koren, TJ Treangen, M Pop
Bioinformatics 27 (21), 2964-2971, 2011
1522011
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
1512014
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
952006
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
892008
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
802019
Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths
J Enk, A Devault, R Debruyne, CE King, T Treangen, D O'Rourke, ...
Genome biology 12 (5), 1-8, 2011
722011
Automated ensemble assembly and validation of microbial genomes
S Koren, TJ Treangen, CM Hill, M Pop, AM Phillippy
BMC bioinformatics 15 (1), 1-9, 2014
702014
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
662018
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Articles 1–20