Todd Treangen

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Prek-12 School and Citywide Wastewater Monitoring of the Enteric Viruses Astrovirus, Rotavirus, and Sapovirus
Graph-based variant discovery reveals novel dynamics in the human microbiome
Graph-based variant discovery reveals novel dynamics in the human microbiome
Probiotic treatment causes sex-specific neuroprotection after traumatic brain injury in mice
2164. Resistome patterns associated with vancomycin non-susceptibility in clinical Clostridioides difficile isolates
Crykey: Comprehensive Identification of SARS-CoV-2 Cryptic Mutations in Wastewater
Leveraging Large Language Models for Predicting Microbial Virulence from Protein Structure and Sequence
Targeted metagenomic sequencing for detection of vertebrate viruses in wastewater for public health surveillance
Analysis of bronchoalveolar lavage fluid metatranscriptomes among patients with COVID-19 disease
Comprehensive analysis and accurate quantification of unintended large gene modifications induced by CRISPR-Cas9 gene editing
One-pass diversified sampling with application to terabyte-scale genomic sequence streams
Bakdrive: Identifying the Minimum Set of Bacterial Driver Species across Multiple Microbial Communities
Fast processing and querying of 170tb of genomics data via a repeated and merged bloom filter (rambo)
Fecal microbiota transplantation derived from Alzheimer’s disease mice worsens brain trauma outcomes in young C57BL/6 mice
High confidence identification of intra-host single nucleotide variants for person-to-person influenza transmission tracking in congregate settings
Limited genomic reconstruction of SARS-CoV-2 transmission history within local epidemiological clusters (preprint)
Comparative metagenomic analysis of microbial taxonomic and functional variations in untreated surface and reclaimed waters used in irrigation applications
Synthetic DNA and biosecurity: Nuances of predicting pathogenicity and the impetus for novel computational approaches for screening oligonucleotides
MetaCarvel: linking assembly graph motifs to biological variants
RAMBO: Repeated And Merged BloOm filter for ultra-fast Multiple Set Membership Testing (MSMT) on large-scale data
Sub-linear sequence search via a Repeated And Merged Bloom Filter (RAMBO): indexing 170 TB data in 14 hours
Hierarchically visualizing metagenome assembly graphs with metagenomescope
Irreconcilable differences: divorcing geographic mutation and recombination rates within a global MRSA clone
Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences
Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths
ScaffViz: visualizing metagenome assemblies
Novel computational methods for large scale genome comparison
M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species