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Todd J. Treangen
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2020 – today
- 2024
- [c14]Ali Azizpour, Advait Balaji, Todd J. Treangen, Santiago Segarra:
GraSSRep: Graph-Based Self-supervised Learning for Repeat Detection in Metagenomic Assembly. RECOMB 2024: 372-376 - [i2]Ali Azizpour, Advait Balaji, Todd J. Treangen, Santiago Segarra:
GraSSRep: Graph-Based Self-Supervised Learning for Repeat Detection in Metagenomic Assembly. CoRR abs/2402.09381 (2024) - 2023
- [j7]Bryce Kille
, Erik Garrison, Todd J. Treangen
, Adam M. Phillippy:
Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation. Bioinform. 39(9) (2023) - [j6]Qi Wang, Michael Nute, Todd J. Treangen
:
Bakdrive: identifying a minimum set of bacterial species driving interactions across multiple microbial communities. Bioinform. 39(Supplement-1): 47-56 (2023) - [c13]Advait Balaji
, Yunxi Liu
, Michael G. Nute
, Bingbing Hu
, Anthony D. Kappell
, Danielle S. Lesassier
, Gene D. Godbold
, Krista Ternus
, Todd J. Treangen
:
SeqScreen-Nano: a computational platform for streaming, in-field characterization of microbial pathogens. BCB 2023: 17:1-17:10 - [c12]Felix Quintana
, Todd J. Treangen
, Lydia E. Kavraki
:
Leveraging Large Language Models for Predicting Microbial Virulence from Protein Structure and Sequence. BCB 2023: 103:1-103:6 - 2022
- [c11]Benjamin Coleman, Benito Geordie, Li Chou, Ryan A. Leo Elworth, Todd J. Treangen, Anshumali Shrivastava:
One-Pass Diversified Sampling with Application to Terabyte-Scale Genomic Sequence Streams. ICML 2022: 4202-4218 - 2021
- [c10]Bryce Kille, Yunxi Liu, Nicolae Sapoval, Michael Nute, Lawrence Rauchwerger, Nancy M. Amato, Todd J. Treangen:
Accelerating SARS-CoV-2 low frequency variant calling on ultra deep sequencing datasets. IPDPS Workshops 2021: 204-208 - [c9]Gaurav Gupta, Minghao Yan, Benjamin Coleman, Bryce Kille, Ryan A. Leo Elworth, Tharun Medini, Todd J. Treangen, Anshumali Shrivastava:
Fast Processing and Querying of 170TB of Genomics Data via a Repeated And Merged BloOm Filter (RAMBO). SIGMOD Conference 2021: 2226-2234
2010 – 2019
- 2019
- [j5]Nathan D. Olson
, Todd J. Treangen, Christopher Michael Hill, Victoria Cepeda-Espinoza, Jay Ghurye, Sergey Koren
, Mihai Pop
:
Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes. Briefings Bioinform. 20(4): 1140-1150 (2019) - [c8]Dreycey Albin, Pravin Muthu, Gene Godbold
, Mikael Lindvall, Madeline Diep, Adam A. Porter, Mihai Pop
, Krista Ternus
, Todd J. Treangen, Dan Nasko, Ryan A. Leo Elworth, Jacob Lu, Advait Balaji, Christian Diaz, Nidhi Shah, Jeremy D. Selengut, Chris Hulme-Lowe:
SeqScreen: a biocuration platform for robust taxonomic and biological process characterization of nucleic acid sequences of interest. BIBM 2019: 1729-1736 - [c7]Qi Wang
, Ryan A. Leo Elworth
, Tian-Rui Liu
, Todd J. Treangen
:
Faster Pan-Genome Construction for Efficient Differentiation of Naturally Occurring and Engineered Plasmids with Plaster. WABI 2019: 19:1-19:12 - [i1]Gaurav Gupta, Minghao Yan, Benjamin Coleman, Bryce Kille, Ryan A. Leo Elworth, Tharun Medini, Todd J. Treangen, Anshumali Shrivastava:
Fast Processing and Querying of 170TB of Genomics Data via a Repeated And Merged BloOm Filter (RAMBO). CoRR abs/1910.04358 (2019) - 2016
- [c6]Amelia Bateman, Todd J. Treangen, Mihai Pop
:
Limitations of Current Approaches for Reference-Free, Graph-Based Variant Detection. BCB 2016: 499-500 - 2014
- [j4]Sergey Koren
, Todd J. Treangen, Christopher Michael Hill, Mihai Pop
, Adam M. Phillippy
:
Automated ensemble assembly and validation of microbial genomes. BMC Bioinform. 15: 126 (2014) - 2013
- [c5]Christopher Michael Hill, Irina Astrovskaya, Howard Huang, Sergey Koren, Atif Memon, Todd J. Treangen, Mihai Pop
:
De novo likelihood-based measures for comparing metagenomic assemblies. BIBM 2013: 94-98 - 2011
- [j3]Sergey Koren
, Todd J. Treangen, Mihai Pop
:
Bambus 2: scaffolding metagenomes. Bioinform. 27(21): 2964-2971 (2011)
2000 – 2009
- 2009
- [j2]Todd J. Treangen, Aaron E. Darling
, Guillaume Achaz, Mark A. Ragan
, Xavier Messeguer, Eduardo P. C. Rocha
:
A Novel Heuristic for Local Multiple Alignment of Interspersed DNA Repeats. IEEE ACM Trans. Comput. Biol. Bioinform. 6(2): 180-189 (2009) - 2008
- [c4]Todd J. Treangen, Aaron E. Darling, Mark A. Ragan
, Xavier Messeguer
:
Gapped Extension for Local Multiple Alignment of Interspersed DNA Repeats. ISBRA 2008: 74-86 - [c3]Todd J. Treangen, Xavier Messeguer:
Novel Computational Methods for Large Scale Genome Comparison. IWPACBB 2008: 68-73 - 2006
- [j1]Todd J. Treangen, Xavier Messeguer
:
M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species. BMC Bioinform. 7: 433 (2006) - [c2]Aaron E. Darling, Todd J. Treangen, Louxin Zhang, Carla Kuiken, Xavier Messeguer, Nicole T. Perna:
Procrastination Leads to Efficient Filtration for Local Multiple Alignment. WABI 2006: 126-137 - 2004
- [c1]Todd J. Treangen, Xavier Messeguer:
M-GCAT: Multiple Genome Comparison and Alignment Tool. Spanish Bioinformatics Conference 2004: 30-33
Coauthor Index
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last updated on 2024-06-10 20:28 CEST by the dblp team
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