Adam M. Phillippy

Also affiliated with National Human Genome Research Institute

Biochemistry, Genetics and Molecular BiologyAgricultural and Biological SciencesEnvironmental Science

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

91.1Author DataRank

Indexed papers

39in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 39 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

The complete sequence of a human genome

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.26.445798

Top 2%

8.2DataRank

Top 2%182 citations

Sergey Koren, Arang Rhie, Allison A. Regier, Andrey V. Bzikadze, Alla Mikheenko +97 more

Papers

Driven by 107 papers — median percentile 84. Top paper: “Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes”.

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

Nature Biotechnology(2020)10.1038/s41587-020-0503-6

N/A

12.8DataRank · unranked

655 citations

Trevor Pesout, Ryan Lorig-Roach, Marina Haukness, Hugh E. Olsen, Colleen M. Bosworth +27 more

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

Nature(2020)10.1038/s41586-020-2547-7

N/A

11.3DataRank · unranked

835 citations

Sergey Koren, Arang Rhie, Mitchell R. Vollger, Ariel Gershman, Andrey V. Bzikadze +48 more

Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

Genome biology(2020)10.1186/s13059-020-02134-9

N/A

10.4DataRank · unranked

3596 citations

Brian P. Walenz, Sergey Koren, Adam M. Phillippy, Arang Rhie

A robust benchmark for detection of germline large deletions and insertions

Nature Biotechnology(2020)10.1038/s41587-020-0538-8

N/A

10.3DataRank · unranked

486 citations

Nancy F. Hansen, Nathan D. Olson, Lesley M. Chapman, James C. Mullikin, Chunlin Xiao +45 more

De novo assembly of the cattle reference genome with single-molecule sequencing

GigaScience(2020)10.1093/gigascience/giaa021

N/A

8.7DataRank · unranked

929 citations

Derek M. Bickhart, Robert D. Schnabel, Sergey Koren, Christine G. Elsik, Elizabeth Tseng +28 more

The complete sequence of a human genome

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.26.445798

Top 2%

8.2DataRank

Top 2%182 citations

Sergey Koren, Arang Rhie, Allison A. Regier, Andrey V. Bzikadze, Alla Mikheenko +97 more

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

Genome Research(2017)10.1101/gr.213611.116

Top 2%

8.0DataRank

Top 2%1305 citations

Thibaut Hourlier, Lon Phan, Hsiu-Chuan Chen, Paul A. Kitts, Terence D. Murphy +37 more

The complete sequence of a human genome

Science(2022)10.1126/science.abj6987

Top 3%

7.0DataRank

Top 3%3361 citations

Sergey Koren, Arang Rhie, Allison A. Regier, Andrey V. Bzikadze, Alla Mikheenko +94 more

The structure, function and evolution of a complete human chromosome 8

Nature(2021)10.1038/s41586-021-03420-7

Top 4%

5.6DataRank

Top 4%388 citations

Mitchell R. Vollger, PingHsun Hsieh, Yafei Mao, Mikhail Liskovykh, Sergey Koren +27 more

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

Nature(2022)10.1038/s41586-022-04601-8

Top 4%

5.6DataRank

Top 4%571 citations

Lucinda Antonacci-Fulton, Thibaut Hourlier, Heather A. Lawson, Julian K. Lucas, Adam M. Phillippy +36 more

Complete genomic and epigenetic maps of human centromeres

Science(2022)10.1126/science.abl4178

Top 4%

5.0DataRank

Top 4%637 citations

Glennis A. Logsdon, Andrey V. Bzikadze, Pragya Sidhwani, Sasha A. Langley, Gina V. Caldas +54 more

Pangenome graph construction from genome alignments with Minigraph-Cactus

Nature Biotechnology(2023)10.1038/s41587-023-01793-w

N/A

5.0DataRank · unranked

318 citations

Jean Monlong, Jana Ebler, Adam M. Novak, Jordan M. Eizenga, Yan Gao +94 more

Segmental duplications and their variation in a complete human genome

Science(2022)10.1126/science.abj6965

Top 5%

4.6DataRank

Top 5%380 citations

Xavi Guitart, Philip C. Dishuck, Ludovica Mercuri, William T. Harvey, Ariel Gershman +15 more

A complete reference genome improves analysis of human genetic variation

Science(2022)10.1126/science.abl3533

Top 5%

4.4DataRank

Top 5%437 citations

Stephanie M. Yan, Daniela C. Soto, Melanie Kirsche, Samantha Zarate, Pavel Avdeyev +28 more

The complete sequence of a human Y chromosome

Nature(2023)10.1038/s41586-023-06457-y

Top 5%

4.1DataRank

Top 5%464 citations

Sergey Nurk, Mark J. P. Chaisson, Savannah J. Hoyt, Dylan J. Taylor, Nicolas Altemose +82 more

Epigenetic patterns in a complete human genome

Science(2022)10.1126/science.abj5089

Top 6%

3.9DataRank

Top 6%322 citations

Michael E.G. Sauria, Xavi Guitart, Mitchell R. Vollger, Paul W. Hook, Savannah J. Hoyt +15 more

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

bioRxiv (Cold Spring Harbor Laboratory)(2016)10.1101/072116

Top 6%

3.8DataRank

Top 6%118 citations

Tina A. Graves-Lindsay, Thibaut Hourlier, Lon Phan, Hsiu-Chuan Chen, Paul A. Kitts +34 more

Platypus and echidna genomes reveal mammalian biology and evolution

Nature(2021)10.1038/s41586-020-03039-0

Top 7%

3.4DataRank

Top 7%175 citations

Linda Shearwin‐Whyatt, Jing Li, Zhenzhen Song, Takashi Hayakawa, David Stevens +37 more

Population genomics of the critically endangered kākāpō

Cell Genomics(2021)10.1016/j.xgen.2021.100002

Top 7%

3.3DataRank

Top 7%243 citations

Tom van der Valk, Hernán E. Morales, Christopher W. Wheat, David Díez‐del‐Molino, Johanna von Seth +35 more

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

Genome biology(2021)10.1186/s13059-021-02336-9

N/A

3.2DataRank · unranked

148 citations

Arang Rhie, Jennifer Balacco, Bettina Haase, Jacquelyn Mountcastle, Olivier Fédrigo +35 more

A Draft Human Pangenome Reference

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.09.499321

Top 8%

2.9DataRank

Top 8%74 citations

Mobin Asri, Daniel Doerr, Eoghan Harrington, Hickey, Glenn, Julian K. Lucas +47 more

Improved reference genome of the arboviral vector Aedes albopictus

Genome biology(2020)10.1186/s13059-020-02141-w

Top 8%

2.6DataRank

Top 8%142 citations

Reem A. Masri, Luciano V. Cosme, Sergey Koren, Françoise Thibaud‐Nissen, James K. Biedler +26 more

The structure, function, and evolution of a complete human chromosome 8

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.08.285395

Top 10%

2.2DataRank

Top 10%54 citations

Mitchell R. Vollger, PingHsun Hsieh, Yafei Mao, Mikhail Liskovykh, Sergey Koren +24 more

Increased mutation and gene conversion within human segmental duplications

Nature(2023)10.1038/s41586-023-05895-y

N/A

2.1DataRank · unranked

114 citations

Philip C. Dishuck, William T. Harvey, William S. DeWitt, Xavi Guitart, Michael E. Goldberg +108 more

A contiguous de novo genome assembly of sugar beet EL10 ( Beta vulgaris L.)

DNA Research(2022)10.1093/dnares/dsac033

Top 12%

1.7DataRank

Top 12%74 citations

Andrew Funk, Paul J. Galewski, Shujun Ou, Belinda Townsend, Karen W. Davenport +24 more

Evolutionary and biomedical insights from a marmoset diploid genome assembly

Nature(2021)10.1038/s41586-021-03535-x

Top 13%

1.6DataRank

Top 13%67 citations

Yang Zhou, Stephanie Marcus, Giulio Formenti, Lucie A. Bergeron, Zhenzhen Song +28 more

Segmental duplications and their variation in a complete human genome

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.26.445678

Top 14%

1.5DataRank

Top 14%46 citations

Xavi Guitart, Philip C. Dishuck, Ludovica Mercuri, William T. Harvey, Ariel Gershman +15 more

Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation

Genome Research(2017)10.1101/gr.215087.116

N/A

1.3DataRank · unranked

8078 citations

Brian P. Walenz, Konstantin Berlin, Kathie A. Mihindukulasuriya, Nicholas H. Bergman, Adam M. Phillippy +2 more

Complete sequencing of ape genomes

Nature(2025)10.1038/s41586-025-08816-3

Top 16%

1.3DataRank

Top 16%128 citations

Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A. Logsdon, Steven J. Solar +123 more

Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy

Nature Biotechnology(2024)10.1038/s41587-023-02100-3

N/A

1.2DataRank · unranked

69 citations

Linelle Abueg, Nadolina Brajuka, Cristóbal Gallardo Alba, Björn Grüning, Byung June Ko +36 more

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome

Nature Biotechnology(2019)10.1038/s41587-019-0217-9

N/A

1.1DataRank · unranked

1912 citations

Paul Peluso, William J. Rowell, Pi-Chuan Chang, Richard J. Hall, Gregory T. Concepcion +24 more

Complex genetic variation in nearly complete human genomes

Nature(2025)10.1038/s41586-025-09140-6

Top 19%

1.1DataRank

Top 19%83 citations

Peter Ebert, Peter A. Audano, Mark Loftus, David Porubsky, Feyza Yilmaz +62 more

Gapless assembly of complete human and plant chromosomes using only nanopore sequencing

Genome Research(2024)10.1101/gr.279334.124

N/A

0.966DataRank · unranked

34 citations

Zhigui Bao, Andrea Guarracino, Shujun Ou, Sara Goodwin, Katharine M. Jenike +22 more

The complete sequence of a human Y chromosome

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.01.518724

Top 22%

0.934DataRank

Top 22%42 citations

Sergey Nurk, Savannah J. Hoyt, Dylan J. Taylor, Nicolas Altemose, Paul W. Hook +79 more

The variation and evolution of complete human centromeres

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.30.542849

Top 22%

0.923DataRank

Top 22%28 citations

Allison N. Rozanski, Fedor Ryabov, Tamara Potapova, В. А. Шепелев, Yafei Mao +12 more

Complete genomic and epigenetic maps of human centromeres

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.12.452052

Top 22%

0.911DataRank

Top 22%17 citations

Glennis A. Logsdon, Andrey V. Bzikadze, Pragya Sidhwani, Sasha A. Langley, Gina V. Caldas +53 more

Strategic vision for improving human health at The Forefront of Genomics

Nature(2020)10.1038/s41586-020-2817-4

N/A

0.879DataRank · unranked

349 citations

Chris Gunter, Leslie G. Biesecker, Valentina Di Francesco, Carla Easter, Elise A. Feingold +25 more

Complex genetic variation in nearly complete human genomes

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.24.614721

Top 27%

0.741DataRank

Top 27%27 citations

Peter Ebert, Peter A. Audano, Mark Loftus, David Porubsky, Feyza Yilmaz +62 more

Automated assembly of high-quality diploid human reference genomes

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.06.483034

Top 28%

0.719DataRank

Top 28%22 citations

Giulio Formenti, Arang Rhie, Andrea Guarracino, Chentao Yang, Jonathan M. D. Wood +77 more

Recombination between heterologous human acrocentric chromosomes

Nature(2023)10.1038/s41586-023-05976-y

N/A

0.710DataRank · unranked

113 citations

Silvia Buonaiuto, Leonardo Gomes de Lima, Tamara Potapova, Arang Rhie, Sergey Koren +106 more

Standards recommendations for the Earth BioGenome Project

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2115639118

N/A

0.706DataRank · unranked

110 citations

Richard Durbin, Paul Flicek, Kerstin Lindblad‐Toh, Xiaofeng Wei, John M. Archibald +40 more

Verkko2 integrates proximity-ligation data with long-read De Bruijn graphs for efficient telomere-to-telomere genome assembly, phasing, and scaffolding

Genome Research(2025)10.1101/gr.280383.124

Top 29%

0.692DataRank

Top 29%25 citations

Mikko Rautiainen, Sergey Nurk, Brian P. Walenz, Steven J. Solar, Adam M. Phillippy +2 more

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

Genome Medicine(2020)10.1186/s13073-019-0708-9

N/A

0.673DataRank · unranked

88 citations

Elliott F. Drábek, Ankit Dwivedi, Emily M. Stucke, Jonathan Crabtree, Antoine Dara +29 more

A High-Quality Blue Whale Genome, Segmental Duplications, and Historical Demography

Molecular Biology and Evolution(2024)10.1093/molbev/msae036

Top 31%

0.644DataRank

Top 31%22 citations

Phillip A. Morin, Susanne Meyer, Li‐Fang Chu, Jeff K. Jacobsen, Jessica Antosiewicz‐Bourget +31 more

Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation

Nature Methods(2022)10.1038/s41592-022-01445-y

N/A

0.641DataRank · unranked

71 citations

Arang Rhie, Brian P. Walenz, Françoise Thibaud‐Nissen, Kishwar Shafin, Sergey Koren +4 more

A complete diploid human genome benchmark for personalized genomics

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.21.677443

Top 32%

0.611DataRank

Top 32%23 citations

Nathan Dwarshuis, Hyun Joo Ji, Arang Rhie, Hailey Loucks, Glennis A. Logsdon +60 more

Chromosome-level echidna genome illuminates evolution of multiple sex chromosome system in monotremes

GigaScience(2025)10.1093/gigascience/giae112

N/A

0.598DataRank · unranked

14 citations

Jiazheng Jin, Xuemei Li, Gregory Gedman, Sarah Pelan, Arang Rhie +9 more

False gene and chromosome losses in genome assemblies caused by GC content variation and repeats

Genome biology(2022)10.1186/s13059-022-02765-0

N/A

0.596DataRank · unranked

52 citations

Chul Lee, Byung June Ko, Dong Ahn Yoo, Sohyoung Won, Adam M. Phillippy +14 more

Low mutation rate in epaulette sharks is consistent with a slow rate of evolution in sharks

Nature Communications(2023)10.1038/s41467-023-42238-x

N/A

0.584DataRank · unranked

48 citations

Frank J. Tulenko, Mats E. Pettersson, Kang Du, Margo Montandon, Sylke Winkler +16 more

Complete sequencing of ape genomes

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.07.31.605654

Top 34%

0.582DataRank

Top 34%26 citations

Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A. Logsdon, Steven J. Solar +123 more

Recombination between heterologous human acrocentric chromosomes

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.15.504037

N/A

0.517DataRank · unranked

9 citations

Silvia Buonaiuto, Leonardo Gomes de Lima, Tamara Potapova, Arang Rhie, Sergey Koren +7 more

The rise of a digital immune system

GigaScience(2012)10.1186/2047-217x-1-4

N/A

0.510DataRank · unranked

29 citations

Adam M. Phillippy, Michael C. Schatz

A contiguous de novo genome assembly of sugar beet EL10 ( Beta vulgaris L.)

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.15.298315

Top 39%

0.497DataRank

Top 39%8 citations

Andrew Funk, Paul J. Galewski, Shujun Ou, Belinda Townsend, Karen W. Davenport +22 more

A haplotype-resolved genome assembly of the Nile rat facilitates exploration of the genetic basis of diabetes

BMC Biology(2022)10.1186/s12915-022-01427-8

N/A

0.489DataRank · unranked

25 citations

Chentao Yang, Giulio Formenti, Kalpana Raja, Lili Yan, Alan Tracey +24 more

Improved reference genome of the arboviral vector Aedes albopictus

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.28.969527

Top 40%

0.477DataRank

Top 40%20 citations

Reem A. Masri, Luciano V. Cosme, Sergey Koren, Françoise Thibaud‐Nissen, James K. Biedler +25 more

Comparative genomics of macaques and integrated insights into genetic variation and population history

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.07.588379

Top 45%

0.408DataRank

Top 45%10 citations

Ning Xu, Lianting Fu, Xiangyu Yang, Yamei Li, Zikun Yang +32 more

Verkko2: Integrating proximity ligation data with long-read De Bruijn graphs for efficient telomere-to-telomere genome assembly, phasing, and scaffolding

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.12.20.629807

Top 45%

0.407DataRank

Top 45%6 citations

Mikko Rautiainen, Sergey Nurk, Brian P. Walenz, Steven J. Solar, Adam M. Phillippy +2 more

The structure, function, and evolution of a complete human chromosome 8

Research Square(2020)10.21203/rs.3.rs-72559/v1

Top 45%

0.404DataRank

Top 45%8 citations

Glennis A. Logsdon, Mitchell R. Vollger, PingHsun Hsieh, Yafei Mao, Mikhail Liskovykh +26 more

Scalable, accessible, and reproducible reference genome assembly and evaluation in Galaxy

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.28.546576

N/A

0.373DataRank · unranked

11 citations

Linelle Abueg, Nadolina Brajuka, Cristóbal Gallardo Alba, Björn Grüning, Byung June Ko +32 more

The 15th Genomic Standards Consortium meeting

Standards in Genomic Sciences(2013)10.4056/sigs.3457

N/A

0.226DataRank · unranked

1 citations

Ilene Karsch-Mizrachi, Peter Sterk, Dawn Field, Lynette Hirschman, Tatiana Tatusova +54 more

The complete genome of a songbird

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.14.682431

Top 65%

0.208DataRank

Top 65%3 citations

Nivesh Jain, Jack A. Medico, Marco Sollitto, Dmitry Antipov, Suziane Alves Barcellos +44 more

Using the linear references from the pangenome to discover missing autism variants

Nature Communications(2026)10.1038/s41467-026-68378-4

Top 65%

0.208DataRank

Top 65%3 citations

Jiadong Lin, Michelle D. Noyes, Young-Jun Kwon, Isaac Wong, Nidhi Koundinya +252 more

A complete and near-perfect rhesus macaque reference genome: lessons from subtelomeric repeats and sequencing bias

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.04.668424

Top 78%

0.104DataRank

Top 78%1 citations

Ning Xu, Yongfeng Lu, Yanhong Nie, Zhengtong Li, Luciana de Gennaro +14 more

StainedGlass: Interactive visualization of massive tandem repeat structures with identity heatmaps

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.19.457003

N/A

0DataRank · unranked

10 citations

Peter Kerpedjiev, Adam M. Phillippy, Evan E. Eichler, Mitchell R. Vollger

Merfin: improved variant filtering and polishing via k-mer validation

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.16.452324

N/A

0DataRank · unranked

15 citations

Arang Rhie, Brian P. Walenz, Françoise Thibaud‐Nissen, Kishwar Shafin, Sergey Koren +4 more

Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.02.450803

N/A

0DataRank · unranked

16 citations

Kishwar Shafin, Michael Alonge, Andrey V. Bzikadze, Giulio Formenti, Arkarachai Fungtammasan +15 more

A family of unusual immunoglobulin superfamily genes in an invertebrate histocompatibility complex

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2207374119

N/A

0DataRank · unranked

27 citations

Steven M. Sanders, Zhiwei Ma, Anh‐Dao Nguyen, Sergey Koren, Manuel Michaca +6 more

Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies

Research Square(2021)10.21203/rs.3.rs-712747/v1

N/A

0DataRank · unranked

20 citations

Ann M. Mc Cartney, Kishwar Shafin, Michael Alonge, Andrey V. Bzikadze, Giulio Formenti +15 more

The genomic structure of a human chromosome 22 nucleolar organizer region determined by TAR cloning

Scientific Reports(2021)10.1038/s41598-021-82565-x

N/A

0DataRank · unranked

19 citations

Vladimir N. Noskov, Aleksey Y. Ogurtsov, Ramaiah Nagaraja, Petrov Ns, Mikhail Liskovykh +8 more

A family of unusual immunoglobulin superfamily genes in an invertebrate histocompatibility complex

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.04.482883

N/A

0DataRank · unranked

7 citations

Steven M. Sanders, Zhiwei Ma, Anh‐Dao Nguyen, Sergey Koren, Manuel Michaca +6 more

A high-quality blue whale genome, segmental duplications, and historical demography

Research Square(2022)10.21203/rs.3.rs-1910240/v1

N/A

0DataRank · unranked

7 citations

Phillip A. Morin, Susanne Meyer, Li‐Fang Chu, Jeff K. Jacobsen, Jessica Antosiewicz‐Bourget +31 more

Improved sequence mapping using a complete reference genome and lift-over

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.04.27.489683

N/A

0DataRank · unranked

6 citations

Luis F. Paulin, Fritz J. Sedlazeck, Sergey Koren, Adam M. Phillippy, Ben Langmead +1 more

Telomere-to-telomere assembly of diploid chromosomes with Verkko

Nature Biotechnology(2023)10.1038/s41587-023-01662-6

N/A

0DataRank · unranked

441 citations

Sergey Nurk, Brian P. Walenz, Glennis A. Logsdon, David Porubsky, Arang Rhie +4 more

A long read mapping method for highly repetitive reference sequences

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.01.363887

N/A

0DataRank · unranked

33 citations

Arang Rhie, Nancy F. Hansen, Sergey Koren, Adam M. Phillippy, Chirag Jain

Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation

Nature Methods(2023)10.1038/s41592-023-01993-x

N/A

0DataRank · unranked

143 citations

Kimberley J. Billingsley, Mira Mastoras, Melissa Meredith, Jean Monlong, Ryan Lorig-Roach +25 more

Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.15.992941

N/A

0DataRank · unranked

73 citations

Brian P. Walenz, Sergey Koren, Adam M. Phillippy, Arang Rhie

Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation

Bioinformatics(2023)10.1093/bioinformatics/btad512

N/A

0DataRank · unranked

41 citations

Erik Garrison, Todd J. Treangen, Adam M. Phillippy, Bryce Kille

Improved sequence mapping using a complete reference genome and lift-over

Nature Methods(2023)10.1038/s41592-023-02069-6

N/A

0DataRank · unranked

30 citations

Luis F. Paulin, Fritz J. Sedlazeck, Sergey Koren, Adam M. Phillippy, Ben Langmead +1 more

Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.12.523790

N/A

0DataRank · unranked

31 citations

Kimberley J. Billingsley, Mira Mastoras, Melissa Meredith, Jean Monlong, Ryan Lorig-Roach +25 more

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.14.992248

N/A

0DataRank · unranked

95 citations

Brian P. Walenz, Arang Rhie, Mitchell R. Vollger, Glennis A. Logsdon, Robert Grothe +5 more

The Complete Sequence and Comparative Analysis of Ape Sex Chromosomes

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.30.569198

N/A

0DataRank · unranked

24 citations

Brandon D. Pickett, Robert S. Harris, Gabrielle A. Hartley, Monika Čechová, Karol Pal +78 more

Efficient High-Quality Metagenome Assembly from Long Accurate Reads using Minimizer-space de Bruijn Graphs

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.07.548136

N/A

0DataRank · unranked

12 citations

Sébastien Raguideau, Robert James, Adam M. Phillippy, Rayan Chikhi, Christopher Quince +1 more

Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.16.540882

N/A

0DataRank · unranked

7 citations

Erik Garrison, Todd J. Treangen, Adam M. Phillippy, Bryce Kille

The genome of the colonial hydroid Hydractinia reveals their stem cells utilize a toolkit of evolutionarily shared genes with all animals

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.25.554815

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2 citations

E. Sally Chang, Justin Waletich, Gonzalo Quiroga-Artigas, Wai Yee Wong, Anh‐Dao Nguyen +24 more

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

Genome Research(2020)10.1101/gr.263566.120

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842 citations

Brian P. Walenz, Arang Rhie, Mitchell R. Vollger, Glennis A. Logsdon, Robert Grothe +5 more

High-quality metagenome assembly from long accurate reads with metaMDBG

Nature Biotechnology(2024)10.1038/s41587-023-01983-6

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161 citations

Sébastien Raguideau, Robert James, Adam M. Phillippy, Rayan Chikhi, Christopher Quince +1 more

Parsnp 2.0: scalable core-genome alignment for massive microbial datasets

Bioinformatics(2024)10.1093/bioinformatics/btae311

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78 citations

Michael Nute, Victor Huang, Eddie Kim, Adam M. Phillippy, Todd J. Treangen +1 more

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

BMC Biology(2020)10.1186/s12915-019-0728-3

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89 citations

Sergey Aganezov, Yoann Anselmetti, Jiyoung Lee, Livio Ruzzante, Maarten Reijnders +21 more

ModDotPlot—rapid and interactive visualization of tandem repeats

Bioinformatics(2024)10.1093/bioinformatics/btae493

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0DataRank · unranked

54 citations

Michael C. Schatz, Adam M. Phillippy, Alexander P. Sweeten

Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle

GigaScience(2020)10.1093/gigascience/giaa029

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0DataRank · unranked

101 citations

Sergey Koren, Arang Rhie, Michael P. Heaton, Ted Kalbfleisch, Timothy Hardy +10 more

Gapless assembly of complete human and plant chromosomes using only nanopore sequencing

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.15.585294

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20 citations

Zhigui Bao, Andrea Guarracino, Shujun Ou, Sara Goodwin, Katharine M. Jenike +18 more

The genome of the colonial hydroid Hydractinia reveals that their stem cells use a toolkit of evolutionarily shared genes with all animals

Genome Research(2024)10.1101/gr.278382.123

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19 citations

E. Sally Chang, Justin Waletich, Gonzalo Quiroga-Artigas, Wai Yee Wong, Anh‐Dao Nguyen +24 more

Parsnp 2.0: Scalable Core-Genome Alignment for Massive Microbial Datasets

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.30.577458

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0DataRank · unranked

16 citations

Michael Nute, Victor Huang, Eddie Kim, Adam M. Phillippy, Todd J. Treangen +1 more

Weighted minimizer sampling improves long read mapping

Bioinformatics(2020)10.1093/bioinformatics/btaa435

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233 citations

Arang Rhie, Haowen Zhang, Claudia Chu, Brian P. Walenz, Sergey Koren +2 more

ModDotPlot - Rapid and interactive visualization of complex repeats

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.15.589623

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0DataRank · unranked

8 citations

Michael C. Schatz, Adam M. Phillippy, Alexander P. Sweeten

Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle

Nature Communications(2020)10.1038/s41467-020-15848-y

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178 citations

Rick Tearle, Ruijie Liu, Sergey Koren, Arang Rhie, Derek M. Bickhart +17 more

Chromosome-specific epigenetic control and transmission of ribosomal DNA arrays in Hominidae genomes

Cell Genomics(2025)10.1016/j.xgen.2025.101031

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0DataRank · unranked

8 citations

Paxton Kostos, Sean McKinney, Matthew Borchers, Jeff Haug, Andrea Guarracino +17 more

Analysis of a Novel Human Protein, ORF3, Encoded by Spacer rDNA

Journal of Molecular Evolution(2025)10.1007/s00239-025-10269-1

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0DataRank · unranked

1 citations

Jung‐Hyun Kim, Hee-Sheung Lee, Sergey Koren, Vladimir Larionov, Adam M. Phillippy +3 more

The Complete Genome of a Songbird

SSRN Electronic Journal(2025)10.2139/ssrn.5649439

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0DataRank

Top 100%0 citations

Nafiseh Jafarzadeh, Jack A. Medico, Marco Sollitto, Dmitry Antipov, Suzianne Barcellos +56 more

Protamine lacunae preserve the paternal chromatin landscape in sperm

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.03.680364

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0DataRank · unranked

3 citations

Rachel A. Heuer, Stephanie C. Bohaczuk, Benjamin J. Mallory, Danilo Dubocanin, Jane Ranchalis +7 more

Finishing a complete giraffe genome from telomere to telomere with Verkko-Fillet

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.01.679366

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0DataRank · unranked

1 citations

Benjamin D. Rosen, Sarah E Fumagalli, Kristen L. Kuhn, Amy Long, Jeffrey J. Schoenebeck +9 more

Long-read mapping to repetitive reference sequences using Winnowmap2

Nature Methods(2022)10.1038/s41592-022-01457-8

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0DataRank · unranked

284 citations

Arang Rhie, Nancy F. Hansen, Sergey Koren, Adam M. Phillippy, Chirag Jain

Origin and evolution of acrocentric chromosomes in human and great apes

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.64898/2025.12.22.696095

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0DataRank · unranked

0 citations

Prajna Hebbar, Leonardo Gomes de Lima, Alexander Patrick Sweeten, Arang Rhie, Tamara Potapova +13 more

StainedGlass: interactive visualization of massive tandem repeat structures with identity heatmaps

Bioinformatics(2022)10.1093/bioinformatics/btac018

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0DataRank · unranked

186 citations

Peter Kerpedjiev, Adam M. Phillippy, Evan E. Eichler, Mitchell R. Vollger

Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies

Nature Methods(2022)10.1038/s41592-022-01440-3

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0DataRank · unranked

125 citations

Kishwar Shafin, Michael Alonge, Andrey V. Bzikadze, Giulio Formenti, Arkarachai Fungtammasan +15 more

From telomere to telomere: The transcriptional and epigenetic state of human repeat elements

Science(2022)10.1126/science.abk3112

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0DataRank · unranked

408 citations

Jessica M. Storer, Gabrielle A. Hartley, Patrick G. S. Grady, Ariel Gershman, Leonardo Gomes de Lima +22 more

Balancing openness with Indigenous data sovereignty: An opportunity to leave no one behind in the journey to sequence all of life

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2115860119

N/A

0DataRank · unranked

86 citations

Jane Anderson, Libby Liggins, Māui Hudson, Matthew Z. Anderson, Ben TeAika +5 more

Adam M. Phillippy

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