PASS: Protein Annotation Surveillance Site for Protein Annotation Using Homologous Clusters, NLP, and Sequence Similarity Networks

by Jin Tao, Kelly A. Brayton, Kelly A. Brayton, Kelly A. Brayton, Shira L. Broschat, Shira L. Broschat, Shira L. Broschat
Published 2021-09-01

Sequence-Based Discovery of Antibacterial Peptides Using Ensemble Gradient Boosting

by Ehdieh Khaledian, Shira L. Broschat
Published 2020-12-01

Automated Training for Algorithms That Learn from Genomic Data

by Gokcen Cilingir, Shira L. Broschat
Published 2015-01-01

Prediction of T4SS Effector Proteins for Anaplasma phagocytophilum Using OPT4e, A New Software Tool

by Zhila Esna Ashari, Kelly A. Brayton, Kelly A. Brayton, Kelly A. Brayton, Shira L. Broschat, Shira L. Broschat, Shira L. Broschat
Published 2019-06-01

Whole Proteome Clustering of 2,307 Proteobacterial Genomes Reveals Conserved Proteins and Significant Annotation Issues

by Svetlana Lockwood, Kelly A. Brayton, Kelly A. Brayton, Kelly A. Brayton, Jeff A. Daily, Shira L. Broschat, Shira L. Broschat, Shira L. Broschat
Published 2019-02-01

A Fast Alignment-Free Approach for De Novo Detection of Protein Conserved Regions.

by Armen Abnousi, Shira L Broschat, Ananth Kalyanaraman
Published 2016-01-01

Alignment-free clustering of large data sets of unannotated protein conserved regions using minhashing

by Armen Abnousi, Shira L. Broschat, Ananth Kalyanaraman
Published 2018-03-01

Automated Confirmation of Protein Annotation Using NLP and the UniProtKB Database

by Jin Tao, Kelly A. Brayton, Shira L. Broschat
Published 2021-12-01

A Systematic Approach to Bacterial Phylogeny Using Order Level Sampling and Identification of HGT Using Network Science

by Ehdieh Khaledian, Kelly A. Brayton, Shira L. Broschat
Published 2020-02-01

ApicoAP: the first computational model for identifying apicoplast-targeted proteins in multiple species of Apicomplexa.

by Gokcen Cilingir, Shira L Broschat, Audrey O T Lau
Published 2012-01-01

Whole-Proteome Analysis of Twelve Species of Alphaproteobacteria Links Four Pathogens

by Yunyun Zhou, Douglas R. Call, Shira L. Broschat
Published 2013-11-01

PARGT: a software tool for predicting antimicrobial resistance in bacteria

by Abu Sayed Chowdhury, Douglas R. Call, Shira L. Broschat
Published 2020-07-01

Using an optimal set of features with a machine learning-based approach to predict effector proteins for Legionella pneumophila.

by Zhila Esna Ashari, Kelly A Brayton, Shira L Broschat
Published 2019-01-01

SU-QMI: A Feature Selection Method Based on Graph Theory for Prediction of Antimicrobial Resistance in Gram-Negative Bacteria

by Abu Sayed Chowdhury, Douglas R. Call, Shira L. Broschat
Published 2020-12-01

An optimal set of features for predicting type IV secretion system effector proteins for a subset of species based on a multi-level feature selection approach.

by Zhila Esna Ashari, Nairanjana Dasgupta, Kelly A Brayton, Shira L Broschat
Published 2018-01-01

Identification of Anaplasma marginale type IV secretion system effector proteins.

by Svetlana Lockwood, Daniel E Voth, Kelly A Brayton, Paul A Beare, Wendy C Brown, Robert A Heinzen, Shira L Broschat
Published 2011-01-01