Todd Treangen

Latest

• 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
• 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