| Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape Y Turakhia, B Thornlow, A Hinrichs, J McBroome, N Ayala, C Ye, K Smith, ... Nature 609 (7929), 994-997, 2022 | 74 | 2022 |
| A daily-updated database and tools for comprehensive SARS-CoV-2 mutation-annotated trees J McBroome, B Thornlow, AS Hinrichs, A Kramer, N De Maio, N Goldman, ... Molecular biology and evolution 38 (12), 5819-5824, 2021 | 66 | 2021 |
| Pandemic-scale phylogenomics reveals elevated recombination rates in the SARS-CoV-2 spike region Y Turkahia, B Thornlow, A Hinrichs, J McBroome, N Ayala, C Ye, ... BioRxiv, 2021 | 41 | 2021 |
| One fly–one genome: chromosome-scale genome assembly of a single outbred Drosophila melanogaster M Adams, J McBroome, N Maurer, E Pepper-Tunick, NF Saremi, ... Nucleic acids research 48 (13), e75-e75, 2020 | 33 | 2020 |
| Fine-Mapping Complex Inversion Breakpoints and Investigating Somatic Pairing in the Anopheles gambiae Species Complex Using Proximity-Ligation Sequencing RB Corbett-Detig, I Said, M Calzetta, M Genetti, J McBroome, NW Maurer, ... Genetics 213 (4), 1495-1511, 2019 | 32 | 2019 |
| Africanized bees extend their distribution in California W Lin, J McBroome, M Rehman, BR Johnson PloS one 13 (1), e0190604, 2018 | 25 | 2018 |
| A chromosome-scale genome assembly and karyotype of the ctenophore Hormiphora californensis DT Schultz, WR Francis, JD McBroome, LM Christianson, SHD Haddock, ... G3 11 (11), jkab302, 2021 | 22 | 2021 |
| Fine-Scale Position Effects Shape the Distribution of Inversion Breakpoints in Drosophila melanogaster J McBroome, D Liang, R Corbett-Detig Genome Biology and Evolution 12 (8), 1378-1391, 2020 | 20 | 2020 |
| A phylogeny-based metric for estimating changes in transmissibility from recurrent mutations in SARS-CoV-2 D Richard, LP Shaw, R Lanfear, R Corbett-Detig, A Hinrichs, J McBroome, ... BioRxiv, 2021.05. 06.442903, 2021 | 15 | 2021 |
| Identifying SARS-CoV-2 regional introductions and transmission clusters in real time J McBroome, J Martin, A de Bernardi Schneider, Y Turakhia, ... Virus Evolution 8 (1), veac048, 2022 | 14 | 2022 |
| Online phylogenetics using parsimony produces slightly better trees and is dramatically more efficient for large SARS-CoV-2 phylogenies than de novo and maximum-likelihood … B Thornlow, A Kramer, C Ye, N De Maio, J McBroome, AS Hinrichs, ... BioRxiv, 2021 | 9 | 2021 |
| A new SARS-CoV-2 lineage that shares mutations with known Variants of Concern is rejected by automated sequence repository quality control B Thornlow, AS Hinrichs, M Jain, N Dhillon, S La, JD Kapp, I Anigbogu, ... biorxiv, 2021 | 7 | 2021 |
| Pandemic-Scale Phylogenomics Reveals Elevated Recombination Rates in the SARS-CoV-2 Spike Region. bioRxiv. 2021 Y Turkahia, B Thornlow, A Hinrichs, J McBroome, N Ayala, C Ye, ... Google Scholar, 0 | 6 | |
| Mutational spectra distinguish SARS-CoV-2 replication niches C Ruis, TP Peacock, LM Polo, D Masone, MS Alvarez, AS Hinrichs, ... BioRxiv, 2022.09. 27.509649, 2022 | 5 | 2022 |
| Pandemic-scale phylogenetics C Ye, B Thornlow, A Kramer, J McBroome, A Hinrichs, R Corbett-Detig, ... bioRxiv, 2021 | 5 | 2021 |
| matutils: Tools to interpret and manipulate mutation annotated trees J McBroome, B Thornlow, AS Hinrichs, N De Maio, N Goldman, ... life sciences 15, 475-476, 2021 | 5 | 2021 |
| Online Phylogenetics with matOptimize Produces Equivalent Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and … AM Kramer, B Thornlow, C Ye, N De Maio, J McBroome, AS Hinrichs, ... Systematic Biology 72 (5), 1039-1051, 2023 | 4 | 2023 |
| A lung-specific mutational signature enables inference of viral and bacterial respiratory niche C Ruis, TP Peacock, LM Polo, D Masone, MS Alvarez, AS Hinrichs, ... Microbial genomics 9 (5), 001018, 2023 | 4 | 2023 |
| BTE: a Python module for pandemic-scale mutation-annotated phylogenetic trees J McBroome, Y Turakhia, R Corbett-Detig Journal of Open Source Software 7 (77), 4433, 2022 | 2 | 2022 |
| A framework for automated scalable designation of viral pathogen lineages from genomic data J McBroome, A de Bernardi Schneider, C Roemer, MT Wolfinger, ... Nature Microbiology, 1-11, 2024 | 1 | 2024 |
Russ Corbett-DetigBiomolecular Engineering and Genomics Institute, UCSCПідтверджена електронна адреса в ucsc.edu
