Benedict Paten

Active 2007–2025

185
Papers
46,716
Citations
85
h-index
167
i10-index

Citations

Citations per year for Benedict Paten1980: 1 citations1987: 3 citations1992: 2 citations1998: 2 citations2000: 2 citations2004: 1 citations2005: 6 citations2006: 2 citations2007: 101 citations2008: 229 citations2009: 232 citations2010: 247 citations2011: 289 citations2012: 271 citations2013: 234 citations2014: 278 citations2015: 335 citations2016: 467 citations2017: 511 citations2018: 591 citations2019: 1,428 citations2020: 1,665 citations2021: 2,068 citations2022: 2,027 citations2023: 2,076 citations2024: 3,056 citations2025: 1,767 citations2026: 116 citations1981–1986: no citations, so these years are not shown1988–1991: no citations, so these years are not shown1993–1997: no citations, so these years are not shown1999: no citations, so this year is not shown2001–2003: no citations, so these years are not shown

Citation sources

Countries

World map of the countries and regions citing this authorUnited States: 6,491 citing papers, 26.8% of this breakdownChina: 2,370 citing papers, 9.8% of this breakdownUnited Kingdom: 1,924 citing papers, 7.9% of this breakdownGermany: 1,609 citing papers, 6.6% of this breakdownCanada: 921 citing papers, 3.8% of this breakdownFrance: 833 citing papers, 3.4% of this breakdownAustralia: 809 citing papers, 3.3% of this breakdownItaly: 679 citing papers, 2.8% of this breakdownSpain: 665 citing papers, 2.7% of this breakdownNetherlands: 597 citing papers, 2.5% of this breakdownJapan: 572 citing papers, 2.4% of this breakdownSwitzerland: 535 citing papers, 2.2% of this breakdown
0%26.8%Other 25.8%

Fields

  • Biochemistry, Genetics and Molecular Biology69.6%
  • Medicine9.8%
  • Agricultural and Biological Sciences6.8%
  • Computer Science3.5%
  • Immunology and Microbiology2.3%
  • Environmental Science1.8%
  • Other6.2%

Topics

  • Genomics and Phylogenetic Studies9.5%
  • RNA modifications and cancer5.2%
  • RNA and protein synthesis mechanisms4.3%
  • Chromosomal and Genetic Variations4.2%
  • RNA Research and Splicing3.9%
  • Genomics and Chromatin Dynamics3.7%
  • Other69.2%

Coauthors

All papers

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  1. The complete sequence of a human genome

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Robert S. Fulton, Arkarachai Fungtammasan, Erik Garrison, Patrick G. S. Grady, Tina A. Graves-Lindsay, Ira M. Hall, Nancy F. Hansen, Gabrielle A. Hartley, Marina Haukness, Kerstin Howe, Michael W. Hunkapiller, Chirag Jain, Miten Jain, Erich D. Jarvis, Peter Kerpedjiev, Melanie Kirsche, Mikhail Kolmogorov, Jonas Korlach, Milinn Kremitzki, Heng Li, Valerie V. Maduro, Tobias Marschall, Ann M. Mc Cartney, Jennifer McDaniel, Danny E. Miller, James C. Mullikin, Eugene W. Myers, Nathan D. Olson, Benedict Paten, Paul Peluso, Pavel A. Pevzner, David Porubskỳ, Tamara Potapova, Е. И. Рогаев, Jeffrey Rosenfeld, Steven L. Salzberg, Valérie Schneider, Fritz J. Sedlazeck, Kishwar Shafin, Colin J. Shew, Alaina Shumate, Ying Sims, Arian F. A. Smit, Daniela C. Soto, Ivan Sović, Jessica M. Storer, Aaron Streets, Beth A. Sullivan, Françoise Thibaud‐Nissen, James Torrance, Justin Wagner, Brian P. Walenz, Aaron M. Wenger, Jonathan Wood, Chunlin Xiao, Stephanie M. Yan, Alice Young, Samantha Zarate, Urvashi Surti, Rajiv C. McCoy, Megan Y. Dennis, Ivan A. Alexandrov, Jennifer L. Gerton, Rachel J. O’Neill, Winston Timp, Justin M. Zook, Michael C. Schatz, Evan E. Eichler, Karen H. Miga, Adam M. Phillippy - Science 2022 cited by 3,421

  2. GENCODE reference annotation for the human and mouse genomes

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Jinrui Xu, Andrew D. Yates, Daniel R. Zerbino, Yan Zhang, Bronwen L. Aken, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Alexandre Reymond, Michael L. Tress, Paul Flicek - Nucleic Acids Research, Nucleic Acids Res. 2018 cited by 3,502

  3. GENCODE 2021

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Ferriol Calvet Riera, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Maxim Y. Wolf, Jinrui Xu, Yucheng T. Yang, Andrew D. Yates, Daniel R. Zerbino, Yan Zhang, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Michael L. Tress, Paul Flicek - Nucleic Acids Research, Nucleic Acids Res. 2020 cited by 1,466

  4. Nanopore sequencing and assembly of a human genome with ultra-long reads

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , - Nature Biotechnology 2017 cited by 2,098

  5. The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community

    Authors: , , , - Genome biology 2016 cited by 1,681

  6. GENCODE: reference annotation for the human and mouse genomes in 2023

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Benjamin James, Yunzhe Jiang, Rory Johnson, Mike P. Kay, Julien Lagarde, Fergal J. Martin, Laura Martínez Gómez, Surag Nair, Pengyu Ni, Fernando Pozo, Vivek Ramalingam, Magali Ruffier, Bianca M. Schmitt, Jacob M. Schreiber, Emily Steed, Marie-Marthe Suner, Dulika Sumathipala, Irina Sycheva, Barbara Uszczynska-Ratajczak, Elizabeth Wass, Yucheng T. Yang, Andrew D. Yates, Zahoor Zafrulla, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Anshul Kundaje, Benedict Paten, Michael L. Tress, Paul Flicek - Nucleic Acids Research, Nucleic Acids Res. 2022 cited by 648

  7. The Human Pangenome Project: a global resource to map genomic diversity

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Paul Flicek, Heng Li, Karen H. Miga, Benedict Paten, Erich D. Jarvis, Ira M. Hall, Evan E. Eichler, David Haussler - Nature 2022 cited by 565

  8. Variation graph toolkit improves read mapping by representing genetic variation in the reference

    Authors: , , , , , , , , , , , - Nature Biotechnology 2018 cited by 885

  9. Toil enables reproducible, open source, big biomedical data analyses

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , - Nature Biotechnology 2017 cited by 1,444

  10. Progressive Cactus is a multiple-genome aligner for the thousand-genome era

    Authors: , , , , , , , , , , , , , , , , , , , , - Nature 2020 cited by 676

  11. Complete genomic and epigenetic maps of human centromeres

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Peter Kerpedjiev, Fedor Gusev, Kristof Tigyi, Shelise Brooks, Alice Young, Sergey Nurk, Sergey Koren, Sofie R. Salama, Benedict Paten, Е. И. Рогаев, Aaron Streets, Gary H. Karpen, Abby F. Dernburg, Beth A. Sullivan, Aaron F. Straight, Travis J. Wheeler, Jennifer L. Gerton, Evan E. Eichler, Adam M. Phillippy, Winston Timp, Megan Y. Dennis, Rachel J. O’Neill, Justin M. Zook, Michael C. Schatz, Pavel A. Pevzner, Mark Diekhans, Charles H. Langley, Ivan A. Alexandrov, Karen H. Miga - Science 2022 cited by 658

  12. Nanopore native RNA sequencing of a human poly(A) transcriptome

    Authors: , , , , , , , , , , , , , , , , , , , , , , , - Nature Methods 2019 cited by 750

  13. Pangenomics enables genotyping of known structural variants in 5202 diverse genomes

    Authors: , , , , , , , , , , , , , , , , , , , - Science 2021 cited by 412

  14. Pangenome Graphs

    Authors: , , , , , , , , , , , , , , , - Annual Review of Genomics and Human Genetics 2020 cited by 349

  15. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Anindya Dutta, Ankit Malhotra, Neerja Karnani, Christopher M. Taylor, Roderic Guigó, Anindya Dutta, Patrick J. Boyle, Man Yu, Tyler Alioto, Josep F. Abril, Roderic Guigó, Eduardo Eyras, Núria López-Bigas, Philipp Kapranov, Josep F. Abril, Robert Castelo, Julien Lagarde, Jorg Drenkow, Eduardo Eyras, Srinka Ghosh, Evelyn J. Cheung, David A. Nix, Philipp Kapranov, Madhavan Ganesh, Ian Bell, Jill Cheng, Sylvain Foissac, Eric D. Green, Hari Tammana, Jörg Drenkow, T Gingeras, Valerie V.B. Maduro, Sujit Dike, T Gingeras, Yutao Fu, Ulaş Karaöz, Francis S. Collins, Valerie V. Maduro, Elliott H. Margulies, Eric D. Green, Hennady P. Shulha, Elliott H. Margulies, Jacquelyn R. Idol, Michael Snyder, Anason Halees, Xiaoling Zhang, Mousheng Xu, Ulaş Karaöz, Alexander E. Urban, Yutao Fu, Joel Rozowsky, Hennady P. Shulha, Yong Yu, Jaafar N. Haidar, Mark Gerstein, Jane M. Lin, Ghia Euskirchen, Jiaqian Wu, Ugrappa Nagalakshmi, M Snyder, Stephen E. Hartman, Peter R. Kraus, Pawandeep Dhami, Alexander E. Urban, Deyou Zheng, Joel Rozowsky, David Vetrie, Zhengdong D. Zhang, Ian Dunham, Michael Seringhaus and 212 more - Nature 2007 cited by 5,283

  16. The UCSC Genome Browser database: 2024 update

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , - Nucleic Acids Research 2023 cited by 358

  17. Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Miten Jain, Benedict Paten - Nature Biotechnology 2020 cited by 654

  18. Evolutionary constraint and innovation across hundreds of placental mammals

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Ashley R. Brown, Joana Damas, Kaili Fan, John Gatesy, Jenna Grimshaw, Jeremy Johnson, Sergey V. Kozyrev, Alyssa J. Lawler, Voichita D. Marinescu, Kathleen M. Morrill, Austin Osmanski, Nicole S. Paulat, BaDoi N. Phan, Steven K. Reilly, Daniel E. Schäffer, Cynthia Steiner, Megan A. Supple, Aryn P. Wilder, Morgan Wirthlin, James R. Xue, Susan J. Birren, Steven Gazal, Robert M. Hubley, Klaus-Peter Koepfli, Tomàs Marquès‐Bonet, Wynn K. Meyer, Martin Nweeia, Pardis C. Sabeti, Beth Shapiro, Arian F. A. Smit, Mark S. Springer, Emma C. Teeling, Zhiping Weng, Michael Hiller, Danielle L. Levesque, Harris A. Lewin, William J. Murphy, Arcadi Navarro, Benedict Paten, Katherine S. Pollard, David A. Ray, Irina Ruf, Oliver A. Ryder, Andreas R. Pfenning, Kerstin Lindblad‐Toh, Elinor K. Karlsson, Gregory Andrews, Joel C. Armstrong, Matteo Bianchi, Susan J. Birren, Kevin R. Bredemeyer, Ana M. Breit, Matthew J. Christmas, Hiram Clawson, Joana Damas, Federica Di Palma, Mark Diekhans, Michael X. Dong, Eduardo Eizirik, Kaili Fan, Cornelia Fanter, Nicole M. Foley, Karin Forsberg‐Nilsson, Carlos J. Garcia, John Gatesy, Steven Gazal, Diane P. Genereux, Linda Goodman, Jenna Grimshaw, Michaela K. Halsey and 79 more - Science 2023 cited by 268

  19. Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads

    Authors: , , , , , , , , , , , , , - Nature Methods 2021 cited by 325

  20. DP-CGAN: Differentially Private Synthetic Data and Label Generation

    Authors: , , - IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW), CVPR Workshops 2019 cited by 197

  21. Telomere-to-telomere assembly of a complete human X chromosome

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Megan Y. Dennis, Daniela C. Soto, Ruta Sahasrabudhe, Gulhan Kaya, Josh Quick, Nicholas J. Loman, Nadine Holmes, Matthew Loose, Urvashi Surti, Rosa Ana Risques, Tina Lindsay, Robert S. Fulton, Ira M. Hall, Benedict Paten, Kerstin Howe, Winston Timp, Alice Young, James C. Mullikin, Pavel A. Pevzner, Jennifer L. Gerton, Beth A. Sullivan, Evan E. Eichler, Adam M. Phillippy - Nature 2020 cited by 840

  22. A comparative genomics multitool for scientific discovery and conservation

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Katherine S. Pollard, David A. Ray, Beth Shapiro, Arian F. A. Smit, Mark S. Springer, Cynthia C. Steiner, Ross Swofford, Jussi Taipale, Emma C. Teeling, Jason Turner-Maier, Jessica Alfoldi, Bruce Birren, Oliver A. Ryder, Harris A. Lewin, Benedict Paten, Tomas Marques-Bonet, Kerstin Lindblad-Toh, Elinor K. Karlsson - Nature 2020 cited by 444

  23. Ultrarapid Nanopore Genome Sequencing in a Critical Care Setting

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Katherine Xiong, Tong Zhu, Miten Jain, Fritz J. Sedlazeck, Andrew Carroll, Benedict Paten, Euan A. Ashley - New England Journal of Medicine 2022 cited by 219

  24. Integrating gene annotation with orthology inference at scale

    Authors: , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Carlos J. Garcia, John Gatesy, Steven Gazal, Diane P. Genereux, Linda Goodman, Jenna Grimshaw, Michaela K. Halsey, Andrew J. Harris, Glenn Hickey, Michael Hiller, Allyson G. Hindle, Robert Hubley, Graham M. Hughes, Jeremy Johnson, David Juan, Irene M. Kaplow, Elinor K. Karlsson, Kathleen C. Keough, Bogdan Kirilenko, Klaus‐Peter Koepfli, Jennifer M. Korstian, Amanda Kowalczyk, Sergey V. Kozyrev, Alyssa J. Lawler, Colleen Lawless, Thomas Lehmann, Danielle L. Levesque, Harris A. Lewin, Xue Li, Abigail Lind, Kerstin Lindblad‐Toh, Ava Mackay-Smith, Voichita D. Marinescu, Tomàs Marquès‐Bonet, Victor C. Mason, Jennifer R. S. Meadows, Wynn K. Meyer, Jill E. Moore, Lucas R. Moreira, Diana D. Moreno-Santillán, Kathleen M. Morrill, Gerard Muntané, William J. Murphy, Arcadi Navarro, Martin Nweeia, Sylvia Ortmann, Austin Osmanski, Benedict Paten, Nicole S. Paulat, Andreas R. Pfenning, BaDoi N. Phan, Katherine S. Pollard, Henry Pratt, David A. Ray, Steven K. Reilly, Jeb Rosen, Irina Ruf, Louise Ryan, Oliver A. Ryder, Pardis C. Sabeti, Daniel E. Schäffer, Aitor Serres, Beth Shapiro, Arian F. A. Smit, Mark S. Springer, Chaitanya Srinivasan, Cynthia Steiner, Jessica M. Storer, Kevin A. Sullivan, Patrick F. Sullivan and 16 more - Science 2023 cited by 204