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Reference-free Structural Variant Detection in Microbiomes via Long-read Coassembly Graphs.
Curry KD, Yu FB, Vance SE, Segarra S, Bhaya D, Chikhi R, Rocha EPC, Treangen TJ. Curry KD, et al. Among authors: treangen tj. bioRxiv [Preprint]. 2024 Jan 30:2024.01.25.577285. doi: 10.1101/2024.01.25.577285. bioRxiv. 2024. Update in: Bioinformatics. 2024 Jun 28;40(Suppl 1):i58-i67. doi: 10.1093/bioinformatics/btae224. PMID: 38352454 Free PMC article. Updated. Preprint.
Ultra-high throughput mapping of genetic design space.
O'Connell RW, Rai K, Piepergerdes TC, Wang Y, Samra KD, Wilson JA, Lin S, Zhang TH, Ramos E, Sun A, Kille B, Curry KD, Rocks JW, Treangen TJ, Mehta P, Bashor CJ. O'Connell RW, et al. Among authors: treangen tj. bioRxiv [Preprint]. 2023 Jul 6:2023.03.16.532704. doi: 10.1101/2023.03.16.532704. bioRxiv. 2023. PMID: 36993481 Free PMC article. Preprint.
Olivar: automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens.
Wang MX, Lou EG, Sapoval N, Kim E, Kalvapalle P, Kille B, Elworth RAL, Liu Y, Fu Y, Stadler LB, Treangen TJ. Wang MX, et al. Among authors: treangen tj. bioRxiv [Preprint]. 2023 Sep 30:2023.02.11.528155. doi: 10.1101/2023.02.11.528155. bioRxiv. 2023. Update in: Nat Commun. 2024 Jul 26;15(1):6306. doi: 10.1038/s41467-024-49957-9. PMID: 36824759 Free PMC article. Updated. Preprint.
Evolutionary and spatiotemporal analyses reveal multiple introductions and cryptic transmission of SARS-CoV-2 VOC/VOI in Malta.
Trovao NS, Pan V, Goel C, Gallego-García P, Liu Y, Barbara C, Borg R, Briffa M, Cilia C, Grech L, Vassallo M, Treangen TJ, Posada D, Beheshti A, Borg J, Zahra G. Trovao NS, et al. Among authors: treangen tj. Microbiol Spectr. 2023 Dec 12;11(6):e0153923. doi: 10.1128/spectrum.01539-23. Epub 2023 Oct 6. Microbiol Spectr. 2023. PMID: 37800925 Free PMC article.
The Great Deceiver: miR-2392's Hidden Role in Driving SARS-CoV-2 Infection.
McDonald JT, Enguita FJ, Taylor D, Griffin RJ, Priebe W, Emmett MR, Sajadi MM, Harris AD, Clement J, Dybas JM, Aykin-Burns N, Guarnieri JW, Singh LN, Grabham P, Baylin SB, Yousey A, Pearson AN, Corry PM, Saravia-Butler A, Aunins TR, Sharma S, Nagpal P, Meydan C, Foox J, Mozsary C, Cerqueira B, Zaksas V, Singh U, Wurtele ES, Costes SV, Davanzo GG, Galeano D, Paccanaro A, Meinig SL, Hagan RS, Bowman NM; UNC COVID-19 Pathobiology Consortium; Wolfgang MC, Altinok S, Sapoval N, Treangen TJ, Moraes-Vieira PM, Vanderburg C, Wallace DC, Schisler J, Mason CE, Chatterjee A, Meller R, Beheshti A. McDonald JT, et al. Among authors: treangen tj. bioRxiv [Preprint]. 2021 Aug 18:2021.04.23.441024. doi: 10.1101/2021.04.23.441024. bioRxiv. 2021. Update in: Cell Rep. 2021 Oct 19;37(3):109839. doi: 10.1016/j.celrep.2021.109839. PMID: 33948587 Free PMC article. Updated. Preprint.
GAGE: A critical evaluation of genome assemblies and assembly algorithms.
Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, Koren S, Treangen TJ, Schatz MC, Delcher AL, Roberts M, Marçais G, Pop M, Yorke JA. Salzberg SL, et al. Among authors: treangen tj. Genome Res. 2012 Mar;22(3):557-67. doi: 10.1101/gr.131383.111. Epub 2012 Jan 6. Genome Res. 2012. PMID: 22147368 Free PMC article.
99 results