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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
nature 486 (7402), 207-214, 2012
85162012
A framework for human microbiome research
nature 486 (7402), 215-221, 2012
19892012
Repetitive DNA and next-generation sequencing: computational challenges and solutions
TJ Treangen, SL Salzberg
Nature Reviews Genetics, 2011
16832011
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
15442016
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
11122014
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
8072012
Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes
TJ Treangen, EPC Rocha
PLoS genetics 7 (1), e1001284, 2011
4852011
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
4092012
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
2382011
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
2292011
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
2172013
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
1602014
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
1572009
Bambus 2: scaffolding metagenomes
S Koren, TJ Treangen, M Pop
Bioinformatics 27 (21), 2964-2971, 2011
1552011
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
1022006
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
1012019
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
942008
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
932018
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
852020
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
772011
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