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Angie S. Hinrichs

santa cruz

49H-index
103Paper Count
4.4WCitation Count
Published Papers 39
Publication Date
Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny
err2026-02-09
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errMartin Hunt; Angie S. Hinrichs; Daniel Anderson; Lily Karim; Bethany L. Dearlove; Jeff Knaggs; Bede Constantinides; Philip W. Fowler; Gillian Rodger; Teresa Street; Sheila Lumley; Hermione Webster; Theo Sanderson; Christopher Ruis; Benjamin Kotzen; Nicola de Maio; Lucas N. Amenga-Etego; Dominic S. Y. Amuzu; Martin Avaro; Gordon A. Awandare; Reuben Ayivor-Djanie; Timothy Barkham; Matthew Bashton; Elizabeth M. Batty; Yaw Bediako; Denise De Belder; Estefania Benedetti; Andreas Bergthaler; Stefan A. Boers; Josefina Campos; Rosina Afua Ampomah Carr; Yuan Yi Constance Chen; Facundo Cuba; Maria Elena Dattero; Wanwisa Dejnirattisai; Alexander Dilthey; Kwabena Obeng Duedu; Lukas Endler; Ilka Engelmann; Ngiambudulu M. Francisco; Jonas Fuchs; Etienne Z. Gnimpieba; Soraya Groc; Jones Gyamfi; Dennis Heemskerk; Torsten Houwaart; Nei-yuan Hsiao; Matthew Huska; Martin Hölzer; Arash Iranzadeh; Hanna Jarva; Chandima Jeewandara; Bani Jolly; Rageema Joseph; Ravi Kant; Karrie Ko Kwan Ki; Satu Kurkela; Maija Lappalainen; Marie Lataretu; Jacob Lemieux; Chang Liu; Gathsaurie Neelika Malavige; Tapfumanei Mashe; Juthathip Mongkolsapaya; Brigitte Montes; Jose Arturo Molina Mora; Collins M. Morang’a; Bernard Mvula; Niranjan Nagarajan; Andrew Nelson; Joyce M. Ngoi; Joana Paula da Paixão; Marcus Panning; Tomas Poklepovich; Peter K. Quashie; Diyanath Ranasinghe; Mara Russo; James Emmanuel San; Nicholas D. Sanderson; Vinod Scaria; Gavin Screaton; October Michael Sessions; Tarja Sironen; Abay Sisay; Darren Smith; Teemu Smura; Piyada Supasa; Chayaporn Suphavilai; Jeremy Swann; Houriiyah Tegally; Bryan Tegomoh; Olli Vapalahti; Andreas Walker; Robert J. Wilkinson; Carolyn Williamson; Xavier Zair; Tulio de Oliveira; Timothy EA Peto; Derrick Crook; Russell Corbett-Detig; Zamin Iqbal
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The UCSC Genome Browser database: 2026 update
err2025-11-01
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errCasper, Jonathan; Speir, Matthew L.; Raney, Brian J.; Perez, Gerardo; Nassar, Luis R.; Lee, Christopher M.; Hinrichs, Angie S.; Gonzalez, Jairo Navarro; Fischer, Clay; Diekhans, Mark; Clawson, Hiram; Benet-Pages, Anna; Barber, Galt P.; Vaske, Charles J.; Van baren, Marijke J.; Wang, Karen; Rodriguez, Yesenia Joanna Puga; Jenkins-Kiefer, Jaidan Ashlyn; Chalamala, Megna; Haussler, David; Kent, William James; Haeussler, Maximilian
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The UCSC Genome Browser database: 2025 update
err2024-10-26
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errPerez, Gerardo; Barber, Galt P.; Benet-Pages, Anna; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Fischer, Clay; Gonzalez, Jairo Navarro; Hinrichs, Angie S.; Lee, Christopher M.; Nassar, Luis R.; Raney, Brian J.; Speir, Matthew L.; van Baren, Marijke J.; Vaske, Charles J.; Haussler, David; Kent, W. James; Haeussler, Maximilian
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Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level
err2024-08-01
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errOAAI
errGoya, Stephanie; Ruis, Christopher; Neher, Richard A.; Meijer, Adam; Aziz, Ammar; Hinrichs, Angie S.; von Gottberg, Anne; Roemer, Cornelius; Amoako, Daniel G.; Acuna, Dolores; McBroome, Jakob; Otieno, James R.; Bhiman, Jinal N.; Everatt, Josie; Munoz-Escalante, Juan C.; Ramaekers, Kaat; Duggan, Kate; Presser, Lance D.; Urbanska, Laura; Venter, Marietjie; Wolter, Nicole; Peret, Teresa C. T.; Salimi, Vahid; Potdar, Varsha; Borges, Vitor; Viegas, Mariana
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SARS-CoV-2 lineage assignments using phylogenetic placement/UShER are superior to pangoLEARN machine-learning method
err2024-01-11
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errde Bernardi Schneider, Adriano; Su, Michelle; Hinrichs, Angie S.; Wang, Jade; Amin, Helly; Bell, John; Wadford, Debra A.; O'Toole, Aine; Scher, Emily; Perry, Marc D.; Turakhia, Yatish; De Maio, Nicola; Hughes, Scott; Corbett-Detig, Russ
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The ongoing evolution of UShER during the SARS-CoV-2 pandemic
err2023-12-28
err3
PREAI
errHinrichs, Angie; Ye, Cheng; Turakhia, Yatish; Corbett-Detig, Russell
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The UCSC Genome Browser database: 2024 update
err2023-11-11
err44
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errRaney, Brian J.; Barber, Galt P.; Benet-Pages, Anna; Casper, Jonathan; Clawson, Hiram; Cline, Melissa S.; Diekhans, Mark; Fischer, Clayton; Gonzalez, Jairo Navarro; Hickey, Glenn; Hinrichs, Angie S.; Kuhn, Robert M.; Lee, Brian T.; Lee, Christopher M.; Le Mercier, Phillipe; Miga, KarenH; Nassar, Luis R.; Nejad, Parisa; Paten, Benedict; Perez, Gerardo; Schmelter, Daniel; Speir, Matthew L.; Wick, Brittney D.; Zweig, Ann S.; Haussler, David; Kent, W. James; Haeussler, Maximilian
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GenArk: towards a million UCSC genome browsers
err2023-10-02
err3
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errClawson, Hiram; Lee, Brian T.; Raney, Brian J.; Barber, Galt P.; Casper, Jonathan; Diekhans, Mark; Fischer, Clay; Gonzalez, Jairo Navarro; Hinrichs, Angie S.; Lee, Christopher M.; Nassar, Luis R.; Perez, Gerardo; Wick, Brittney; Schmelter, Daniel; Speir, Matthew L.; Armstrong, Joel; Zweig, Ann S.; Kuhn, Robert M.; Kirilenko, Bogdan M.; Hiller, Michael; Haussler, David; Kent, W. James; Haeussler, Maximilian
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Online Phylogenetics with matOptimize Produces Equivalent Trees and is Dramatically More Efficient for Large SARS-CoV-2 Phylogenies than de novo and Maximum-Likelihood Implementations
err2023-05-26
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errKramer, Alexander M.; Thornlow, Bryan; Ye, Cheng; De Maio, Nicola; McBroome, Jakob; Hinrichs, Angie S.; Lanfear, Robert; Turakhia, Yatish; Corbett-Detig, Russell
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A lung- specific mutational signature enables inference of viral and bacterial respiratory niche
err2023-05-15
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errRuis, Christopher; Peacock, Thomas P.; Polo, Luis M.; Masone, Diego; Alvarez, Maria Soledad; Hinrichs, Angie S.; Turakhia, Yatish; Cheng, Ye; McBroome, Jakob; Corbett-Detig, Russell; Parkhill, Julian; Floto, R. Andres
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The UCSC Genome Browser database: 2023 update
err2022-11-24
err202
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errNassar, Luis R.; Barber, Galt P.; Benet-Pages, Anna; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Fischer, Clay; Gonzalez, Jairo Navarro; Hinrichs, Angie S.; Lee, Brian T.; Lee, Christopher M.; Muthuraman, Pranav; Nguy, Beagan; Pereira, Tiana; Nejad, Parisa; Perez, Gerardo; Raney, Brian J.; Schmelter, Daniel; Speir, Matthew L.; Wick, Brittney D.; Zweig, Ann S.; Haussler, David; Kuhn, Robert M.; Haeussler, Maximilian; Kent, W. James
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The UCSC Genome Browser database: 2022 update
err2021-10-28
err162
errOAAI
errLee, Brian T.; Barber, Galt P.; Benet-Pages, Anna; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Fischer, Clay; Gonzalez, Jairo Navarro; Hinrichs, Angie S.; Lee, Christopher M.; Muthuraman, Pranav; Nassar, Luis R.; Nguy, Beagan; Pereira, Tiana; Perez, Gerardo; Raney, Brian J.; Rosenbloom, Kate R.; Schmelter, Daniel; Speir, Matthew L.; Wick, Brittney D.; Zweig, Ann S.; Haussler, David; Kuhn, Robert M.; Haeussler, Maximilian; Kent, W. James
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A Daily-Updated Database and Tools for Comprehensive SARS-CoV-2 Mutation-Annotated Trees
err2021-09-01
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errMcBroome, Jakob; Thornlow, Bryan; Hinrichs, Angie S.; Kramer, Alexander; De Maio, Nicola; Goldman, Nick; Haussler, David; Corbett-Detig, Russell; Turakhia, Yatish
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Ultrafast Sample placement on Existing tRees (UShER) enables real-time phylogenetics for the SARS-CoV-2 pandemic
err2021-05-10
err202
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errTurakhia, Yatish; Thornlow, Bryan; Hinrichs, Angie S.; De Maio, Nicola; Gozashti, Landen; Lanfear, Robert; Haussler, David; Corbett-Detig, Russell
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The UCSC Genome Browser database: 2021 update
err2020-11-22
err321
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errGonzalez, Jairo Navarro; Zweig, Ann S.; Speir, Matthew L.; Schmelter, Daniel; Rosenbloom, Kate R.; Raney, Brian J.; Powell, Conner C.; Nassar, Luis R.; Maulding, Nathan D.; Lee, Christopher M.; Lee, Brian T.; Hinrichs, Angie S.; Fyfe, Alastair C.; Fernandes, Jason D.; Diekhans, Mark; Clawson, Hiram; Casper, Jonathan; Benet-Pages, Anna; Barber, Galt P.; Haussler, David; Kuhn, Robert M.; Haeussler, Maximilian; Kent, W. James
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Stability of SARS-CoV-2 phylogenies
err2020-11-18
err64
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errTurakhia, Yatish; De Maio, Nicola; Thornlow, Bryan; Gozashti, Landen; Lanfear, Robert; Walker, Conor R.; Hinrichs, Angie S.; Fernandes, Jason D.; Borges, Rui; Slodkowicz, Greg; Weilguny, Lukas; Haussler, David; Goldman, Nick; Corbett-Detig, Russell
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The UCSC SARS-CoV-2 Genome Browser
err2020-09-09
err67
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errFernandes, Jason D.; Hinrichs, Angie S.; Clawson, Hiram; Gonzalez, Jairo Navarro; Lee, Brian T.; Nassar, Luis R.; Raney, Brian J.; Rosenbloom, Kate R.; Nerli, Santrupti; Rao, Arjun A.; Schmelter, Daniel; Fyfe, Alastair; Maulding, Nathan; Zweig, Ann S.; Lowe, Todd M.; Ares, Manuel Jr Jr; Corbet-Detig, Russ; Kent, W. James; Haussler, David; Haeussler, Maximilian
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UCSC Genome Browser enters 20th year
err2019-11-06
err160
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errLee, Christopher M.; Barber, Galt P.; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Gonzalez, Jairo Navarro; Hinrichs, Angie S.; Lee, Brian T.; Nassar, Luis R.; Powell, Conner C.; Raney, Brian J.; Rosenbloom, Kate R.; Schmelter, Daniel; Speir, Matthew L.; Zweig, Ann S.; Haussler, David; Haeussler, Maximilian; Kuhn, Robert M.; Kent, W. James
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The UCSC Genome Browser database: 2019 update
err2018-11-08
err592
errOAAI
errHaeussler, Maximilian; Zweig, Ann S.; Tyner, Cath; Speir, Matthew L.; Rosenbloom, Kate R.; Raney, Brian J.; Lee, Christopher M.; Lee, Brian T.; Hinrichs, Angie S.; Gonzalez, Jairo Navarro; Gibson, David; Diekhans, Mark; Clawson, Hiram; Casper, Jonathan; Barber, Galt P.; Haussler, David; Kuhn, Robert M.; Kent, W. James
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The UCSC Genome Browser database: 2018 update
err2017-11-02
err377
errOAAI
errCasper, Jonathan; Zweig, Ann S.; Villarreal, Chris; Tyner, Cath; Speir, Matthew L.; Rosenbloom, Kate R.; Raney, Brian J.; Lee, Christopher M.; Lee, Brian T.; Karolchik, Donna; Hinrichs, Angie S.; Haeussler, Maximilian; Guruvadoo, Luvina; Gonzalez, Jairo Navarro; Gibson, David; Fiddes, Ian T.; Eisenhart, Christopher; Diekhans, Mark; Clawson, Hiram; Barber, Galt P.; Armstrong, Joel; Haussler, David; Kuhn, Robert M.; Kent, W. James
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