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

por Messeguer Xavier, Treangen Todd J
Publicado 2006-10-01

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

por Treangen, Todd J, Messeguer, Xavier
Publicado 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

por Treangen, Todd J, Pop, Mihai
Publicado en EMBO Rep (2018)

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

por Treangen, Todd J., Salzberg, Steven L.
Publicado 2011

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

por Treangen, Todd J, Phillippy, Adam M
Publicado 2012

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

por Treangen, Todd J., Rocha, Eduardo P. C.
Publicado 2011

Bambus 2: scaffolding metagenomes

por Koren, Sergey, Treangen, Todd J., Pop, Mihai
Publicado 2011

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

por Treangen, Todd J., Wagner, Justin, Burns, Mark P., Villapol, Sonia
Publicado en Front Immunol (2018)

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

por Treangen, Todd J, Ambur, Ole Herman, Tonjum, Tone, Rocha, Eduardo PC
Publicado 2008

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

por Treangen, Todd J, Ondov, Brian D, Koren, Sergey, Phillippy, Adam M
Publicado en Genome Biol (2014)

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

por Davison, Michelle, Treangen, Todd J., Koren, Sergey, Pop, Mihai, Bhaya, Devaki
Publicado en PLoS One (2016)

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

por Nasko, Daniel J., Koren, Sergey, Phillippy, Adam M., Treangen, Todd J.
Publicado en Genome Biol (2018)

Next Generation Sequence Assembly with AMOS

por Treangen, Todd J, Sommer, Dan D, Angly, Florent E, Koren, Sergey, Pop, Mihai
Publicado 2011

MetAMOS: a metagenomic assembly and analysis pipeline for AMOS

por Treangen, Todd J, Koren, Sergey, Astrovskaya, Irina, Sommer, Dan, Liu, Bo, Pop, Mihai
Publicado 2011

Automated ensemble assembly and validation of microbial genomes

por Koren, Sergey, Treangen, Todd J, Hill, Christopher M, Pop, Mihai, Phillippy, Adam M
Publicado 2014

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

por Treangen, Todd J., Schoeler, George, Phillippy, Adam M., Bergman, Nicholas H., Turell, Michael J.
Publicado en PLoS Negl Trop Dis (2016)

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

por Wang, Qi, Kille, Bryce, Liu, Tian Rui, Elworth, R. A. Leo, Treangen, Todd J.
Publicado en Nat Commun (2021)

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

por Kille, Bryce, Liu, Yunxi, Sapoval, Nicolae, Nute, Michael, Rauchwerger, Lawrence, Amato, Nancy, Treangen, Todd J.
Publicado en ArXiv (2021)

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

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

Mash: fast genome and metagenome distance estimation using MinHash

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