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 2021

Synthetic DNA and biosecurity: Nuances of predicting pathogenicity and the impetus for novel computational approaches for screening oligonucleotides

por Elworth, R. A. Leo, Diaz, Christian, Yang, Jing, de Figueiredo, Paul, Ternus, Krista, Treangen, Todd
Publicado 2020

De novo identification of microbial contaminants in low microbial biomass microbiomes with Squeegee

por Liu, Yunxi, Elworth, R. A. Leo, Jochum, Michael D., Aagaard, Kjersti M., Treangen, Todd J.
Publicado 2022

To Petabytes and beyond: recent advances in probabilistic and signal processing algorithms and their application to metagenomics

por Elworth, R A Leo, Wang, Qi, Kota, Pavan K, Barberan, C J, Coleman, Benjamin, Balaji, Advait, Gupta, Gaurav, Baraniuk, Richard G, Shrivastava, Anshumali, Treangen, Todd J
Publicado 2020

Olivar: automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens

por Wang, Michael X., Lou, Esther G., Sapoval, Nicolae, Kim, Eddie, Kalvapalle, Prashant, Kille, Bryce, Elworth, R. A. Leo, Liu, Yunxi, Fu, Yilei, Stadler, Lauren B., Treangen, Todd J.
Publicado 2023

SeqScreen: accurate and sensitive functional screening of pathogenic sequences via ensemble learning

por Balaji, Advait, Kille, Bryce, Kappell, Anthony D., Godbold, Gene D., Diep, Madeline, Elworth, R. A. Leo, Qian, Zhiqin, Albin, Dreycey, Nasko, Daniel J., Shah, Nidhi, Pop, Mihai, Segarra, Santiago, Ternus, Krista L., Treangen, Todd J.
Publicado 2022

Current progress and open challenges for applying deep learning across the biosciences

por Sapoval, Nicolae, Aghazadeh, Amirali, Nute, Michael G., Antunes, Dinler A., Balaji, Advait, Baraniuk, Richard, Barberan, C. J., Dannenfelser, Ruth, Dun, Chen, Edrisi, Mohammadamin, Elworth, R. A. Leo, Kille, Bryce, Kyrillidis, Anastasios, Nakhleh, Luay, Wolfe, Cameron R., Yan, Zhi, Yao, Vicky, Treangen, Todd J.
Publicado 2022

Hidden genomic diversity of SARS-CoV-2: implications for qRT-PCR diagnostics and transmission

por Sapoval, Nicolae, Mahmoud, Medhat, Jochum, Michael D., Liu, Yunxi, Elworth, R. A. Leo, Wang, Qi, Albin, Dreycey, Ogilvie, Huw, Lee, Michael D., Villapol, Sonia, Hernandez, Kyle M., Berry, Irina Maljkovic, Foox, Jonathan, Beheshti, Afshin, Ternus, Krista, Aagaard, Kjersti M., Posada, David, Mason, Christopher E., Sedlazeck, Fritz, Treangen, Todd J.
Publicado 2020

SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission

por Sapoval, Nicolae, Mahmoud, Medhat, Jochum, Michael D., Liu, Yunxi, Elworth, R.A. Leo, Wang, Qi, Albin, Dreycey, Ogilvie, Huw A., Lee, Michael D., Villapol, Sonia, Hernandez, Kyle M., Maljkovic Berry, Irina, Foox, Jonathan, Beheshti, Afshin, Ternus, Krista, Aagaard, Kjersti M., Posada, David, Mason, Christopher E., Sedlazeck, Fritz J., Treangen, Todd J.
Publicado 2021