M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species

par Messeguer Xavier, Treangen Todd J
Publié 2006-10-01

M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species

par Treangen, Todd J, Messeguer, Xavier
Publié 2006

You can't always sequence your way out of a tight spot: Next‐generation sequencing holds great promise for pathogen detection, but the devil is in the details

par Treangen, Todd J, Pop, Mihai
Publié dans EMBO Rep (2018)

Repetitive DNA and next-generation sequencing: computational challenges and solutions

par Treangen, Todd J., Salzberg, Steven L.
Publié 2011

Irreconcilable differences: divorcing geographic mutation and recombination rates within a global MRSA clone

par Treangen, Todd J, Phillippy, Adam M
Publié 2012

Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes

par Treangen, Todd J., Rocha, Eduardo P. C.
Publié 2011

Bambus 2: scaffolding metagenomes

par Koren, Sergey, Treangen, Todd J., Pop, Mihai
Publié 2011

Traumatic Brain Injury in Mice Induces Acute Bacterial Dysbiosis Within the Fecal Microbiome

par Treangen, Todd J., Wagner, Justin, Burns, Mark P., Villapol, Sonia
Publié dans Front Immunol (2018)

The impact of the neisserial DNA uptake sequences on genome evolution and stability

par Treangen, Todd J, Ambur, Ole Herman, Tonjum, Tone, Rocha, Eduardo PC
Publié 2008

The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes

par Treangen, Todd J, Ondov, Brian D, Koren, Sergey, Phillippy, Adam M
Publié dans Genome Biol (2014)

Diversity in a Polymicrobial Community Revealed by Analysis of Viromes, Endolysins and CRISPR Spacers

par Davison, Michelle, Treangen, Todd J., Koren, Sergey, Pop, Mihai, Bhaya, Devaki
Publié dans PLoS One (2016)

RefSeq database growth influences the accuracy of k-mer-based lowest common ancestor species identification

par Nasko, Daniel J., Koren, Sergey, Phillippy, Adam M., Treangen, Todd J.
Publié dans Genome Biol (2018)

Next Generation Sequence Assembly with AMOS

par Treangen, Todd J, Sommer, Dan D, Angly, Florent E, Koren, Sergey, Pop, Mihai
Publié 2011

MetAMOS: a metagenomic assembly and analysis pipeline for AMOS

par Treangen, Todd J, Koren, Sergey, Astrovskaya, Irina, Sommer, Dan, Liu, Bo, Pop, Mihai
Publié 2011

Automated ensemble assembly and validation of microbial genomes

par Koren, Sergey, Treangen, Todd J, Hill, Christopher M, Pop, Mihai, Phillippy, Adam M
Publié 2014

Identification and Genomic Analysis of a Novel Group C Orthobunyavirus Isolated from a Mosquito Captured near Iquitos, Peru

par Treangen, Todd J., Schoeler, George, Phillippy, Adam M., Bergman, Nicholas H., Turell, Michael J.
Publié dans PLoS Negl Trop Dis (2016)

PlasmidHawk improves lab of origin prediction of engineered plasmids using sequence alignment

par Wang, Qi, Kille, Bryce, Liu, Tian Rui, Elworth, R. A. Leo, Treangen, Todd J.
Publié dans Nat Commun (2021)

Accelerating SARS-CoV-2 low frequency variant calling on ultra deep sequencing datasets

par Kille, Bryce, Liu, Yunxi, Sapoval, Nicolae, Nute, Michael, Rauchwerger, Lawrence, Amato, Nancy, Treangen, Todd J.
Publié dans ArXiv (2021)

Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes

par Olson, Nathan D, Treangen, Todd J, Hill, Christopher M, Cepeda-Espinoza, Victoria, Ghurye, Jay, Koren, Sergey, Pop, Mihai
Publié dans Brief Bioinform (2017)

Mash: fast genome and metagenome distance estimation using MinHash

par Ondov, Brian D., Treangen, Todd J., Melsted, Páll, Mallonee, Adam B., Bergman, Nicholas H., Koren, Sergey, Phillippy, Adam M.
Publié dans Genome Biol (2016)