Jacob L. Steenwyk

Also affiliated with University of California, Berkeley

Biochemistry, Genetics and Molecular BiologyMedicineAgricultural and Biological Sciences

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 2%percentile

3.5Author DataRank

Indexed papers

7in 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 7 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.

Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus

Microbiology Spectrum(2024)10.1128/spectrum.03980-23

Top 25%

0.799DataRank

Top 25%35 citations

Charu Balamurugan, Huzefa A. Raja, Carla Gonçalves, N. Li, Frank N. Martin +9 more

Papers

Driven by 51 papers — median percentile 58. Top paper: “ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference”.

ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference

PLoS Biology(2020)10.1371/journal.pbio.3001007

N/A

4.6DataRank · unranked

765 citations

Thomas J. Buida, Yuanning Li, Xing‐Xing Shen, Antonis Rokas, Jacob L. Steenwyk

OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

PLoS Biology(2022)10.1371/journal.pbio.3001827

N/A

1.1DataRank · unranked

36 citations

Dayna Goltz, Thomas J. Buida, Yuanning Li, Xing‐Xing Shen, Antonis Rokas +1 more

Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus

Microbiology Spectrum(2024)10.1128/spectrum.03980-23

Top 25%

0.799DataRank

Top 25%35 citations

Charu Balamurugan, Huzefa A. Raja, Carla Gonçalves, N. Li, Frank N. Martin +9 more

orthofisher: a broadly applicable tool for automated gene identification and retrieval

G3 Genes Genomes Genetics(2021)10.1093/g3journal/jkab250

N/A

0.717DataRank · unranked

52 citations

Antonis Rokas, Jacob L. Steenwyk

A global phylogenomic analysis of the shiitake genus Lentinula

Proceedings of the National Academy of Sciences(2023)10.1073/pnas.2214076120

Top 28%

0.704DataRank

Top 28%27 citations

Byoungnam Min, Miguel A. Naranjo-Ortíz, Brian P. Looney, Zachary Konkel, Jason C. Slot +34 more

Genomic and ecological factors shaping specialism and generalism across an entire subphylum

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.19.545611

Top 30%

0.672DataRank

Top 30%25 citations

Abigail L. LaBella, Marie‐Claire Harrison, John F. Wolters, Chao Liu, Yonglin Li +27 more

Diverse signatures of convergent evolution in cactus-associated yeasts

PLoS Biology(2024)10.1371/journal.pbio.3002832

Top 42%

0.446DataRank

Top 42%15 citations

Marie‐Claire Harrison, Jacob L. Steenwyk, Dana A. Opulente, Abigail L. LaBella, John F. Wolters +6 more

Evolutionary origin and population diversity of a cryptic hybrid pathogen

Nature Communications(2024)10.1038/s41467-024-52639-1

N/A

0.353DataRank · unranked

8 citations

S E Knowles, Rafael Wesley Bastos, Charu Balamurugan, David C. Rinker, Matthew E. Mead +24 more

An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.09.451830

Top 51%

0.342DataRank

Top 51%4 citations

Megan Phillips, Feng Yang, Swapneeta S. Date, Todd R. Graham, Judith Berman +3 more

Draft Genome Sequences of Four Aspergillus Section Fumigati Clinical Strains

Microbiology Resource Announcements(2020)10.1128/mra.00856-20

Top 56%

0.294DataRank

Top 56%5 citations

Olga Rivero-Menéndez, Jacob L. Steenwyk, Matthew E. Mead, Gustavo H. Goldman, Ana Alastruey‐Izquierdo +2 more

COVID-19-Associated Pulmonary Aspergillosis Isolates Are Genomically Diverse but Similar to Each Other in Their Responses to Infection-Relevant Stresses

Microbiology Spectrum(2023)10.1128/spectrum.05128-22

N/A

0.292DataRank · unranked

6 citations

Patrícia Alves de Castro, Jacob L. Steenwyk, Jean‐Pierre Gangneux, Martin Hoenigl, Juergen Prattes +13 more

Diverse signatures of convergent evolution in cacti-associated yeasts

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.14.557833

Top 58%

0.269DataRank

Top 58%5 citations

Marie‐Claire Harrison, Jacob L. Steenwyk, Dana A. Opulente, Abigail L. LaBella, John F. Wolters +6 more

Regulation of gliotoxin biosynthesis and protection in Aspergillus species

PLoS Genetics(2022)10.1371/journal.pgen.1009965

N/A

0DataRank · unranked

37 citations

Ana Cristina Colabardini, Maísa Moraes, Maria Augusta Crivelente Horta, Sonja L. Knowles, Huzefa A. Raja +12 more

An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function

Science Advances(2022)10.1126/sciadv.abn0105

N/A

0DataRank · unranked

30 citations

Megan Phillips, Feng Yang, Swapneeta S. Date, Todd R. Graham, Judith Berman +3 more

Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum

Current Biology(2022)10.1016/j.cub.2022.10.025

N/A

0DataRank · unranked

30 citations

Hongyue Liu, Jacob L. Steenwyk, Abigail L. LaBella, Marie‐Claire Harrison, Marizeth Groenewald +6 more

Resistance-Guided Mining of Bacterial Genotoxins Defines a Family of DNA Glycosylases

mBio(2022)10.1128/mbio.03297-21

N/A

0DataRank · unranked

11 citations

Katherine L. Wahl, Jacob L. Steenwyk, Antonis Rokas, Brandt F. Eichman, Noah P. Bradley

Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.22.517304

N/A

0DataRank · unranked

4 citations

Charu Balamurugan, Huzefa A. Raja, Carla Gonçalves, N. Li, Frank N. Martin +8 more

Examination of genome-wide ortholog variation in clinical and environmental isolates of the fungal pathogen Aspergillus fumigatus

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.23.485522

N/A

0DataRank · unranked

1 citations

Jacob L. Steenwyk, Matthew E. Mead, Luciano H. B. dos Santos, Shu Zhao, John G. Gibbons +5 more

Lack of universal mutational biases in a fungal phylum

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.29.486229

N/A

0DataRank · unranked

0 citations

Jacob L. Steenwyk, Antonis Rokas, Qianhui Zheng

Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond

PLoS Pathogens(2023)10.1371/journal.ppat.1011704

N/A

0DataRank · unranked

14 citations

Antonis Rokas, Gustavo H. Goldman, Jacob L. Steenwyk

The Dictyostelium discoideum genome lacks significant DNA methylation and uncovers palindromic sequences as a source of false positives in bisulfite sequencing

NAR Genomics and Bioinformatics(2023)10.1093/nargab/lqad035

N/A

0DataRank · unranked

8 citations

Tayla C. Cormier, Jacob L. Steenwyk, James St Denis, Javier F. Tabima, Jacqueline M. Dresch +2 more

The dawn of relaxed phylogenetics

(2023)10.1371/journal.pbio.3001998

N/A

0DataRank · unranked

6 citations

Antonis Rokas, Jacob L. Steenwyk

Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.03.547508

N/A

0DataRank · unranked

11 citations

S E Knowles, Rafael Wesley Bastos, Charu Balamurugan, David C. Rinker, Matthew E. Mead +16 more

The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.17.524442

N/A

0DataRank · unranked

1 citations

Jacob L. Steenwyk, Gustavo H. Goldman, Antonis Rokas, Charu Balamurugan

CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.17.553567

N/A

0DataRank · unranked

0 citations

Jackson R. Rapala, Connie B. Nichols, Christina Alexandre, R. Blake Billmyre, Jacob L. Steenwyk +3 more

A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.22.553365

N/A

0DataRank · unranked

0 citations

Camila Figueiredo Pinzan, Patrícia Alves de Castro, Norman van Rhijn, Kayleigh Earle, Hong Liu +22 more

A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis

Research Square(2023)10.21203/rs.3.rs-3306535/v1

N/A

0DataRank · unranked

0 citations

Clara Valero, Camila Figueiredo Pinzan, Patrícia de Castro, Norman van Rhijn, Kayleigh Earle +21 more

A taxon-rich and genome-scale phylogeny of Opisthokonta

PLoS Biology(2024)10.1371/journal.pbio.3002794

N/A

0DataRank · unranked

29 citations

Jacob L. Steenwyk, Xiaofan Zhou, Darrin T. Schultz, Kevin M. Kocot, Xing‐Xing Shen +3 more

Aspergillus fumigatus conidial surface-associated proteome reveals factors for fungal evasion and host immunity modulation

Nature Microbiology(2024)10.1038/s41564-024-01782-y

N/A

0DataRank · unranked

24 citations

Clara Valero, Patrícia Alves de Castro, Jefferson Luiz da Silva, Kayleigh Earle, Hong Liu +28 more

PhyKIT: A Multitool for Phylogenomics

Current Protocols(2024)10.1002/cpz1.70016

N/A

0DataRank · unranked

12 citations

Gemma I. Martínez‐Redondo, Thomas J. Buida, Emile Gluck‐Thaler, Xing‐Xing Shen, Toni Gabaldón +3 more

Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus

G3 Genes Genomes Genetics(2024)10.1093/g3journal/jkae091

N/A

0DataRank · unranked

4 citations

Jacob L. Steenwyk, Antonis Rokas, Alec Brown

CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair

PLoS Genetics(2024)10.1371/journal.pgen.1011158

N/A

0DataRank · unranked

10 citations

Jackson R. Rapala, Connie B. Nichols, Christina Alexandre, R. Blake Billmyre, Jacob L. Steenwyk +3 more

Natural trait variation across Saccharomycotina species

FEMS Yeast Research(2024)10.1093/femsyr/foae002

N/A

0DataRank · unranked

4 citations

Jacob L. Steenwyk, Rachel B. Brem, Jun-Ting Johnson Wang

Genomic, transcriptomic, and ecological diversity of Penicillium species in cheese rind microbiomes

Fungal Genetics and Biology(2024)10.1016/j.fgb.2023.103862

N/A

0DataRank · unranked

4 citations

Megan N. Biango‐Daniels, Jacob L. Steenwyk, Antonis Rokas, Nicolas L. Louw, Robert Nardella +2 more

The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi

G3 Genes Genomes Genetics(2024)10.1093/g3journal/jkae063

N/A

0DataRank · unranked

2 citations

Jacob L. Steenwyk, Gustavo H. Goldman, Antonis Rokas, Charu Balamurugan

Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.06.05.597512

N/A

0DataRank · unranked

7 citations

Yonglin Li, Yonglin Li, Hongyue Liu, Jacob L. Steenwyk, Kyle T. David +17 more

Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.08.574724

N/A

0DataRank · unranked

0 citations

Jacob L. Steenwyk, Antonis Rokas, Alec Brown

Stable Hypermutators Revealed by the Genomic Landscape of Genes Involved in Genome Stability Among Yeast Species

Molecular Biology and Evolution(2025)10.1093/molbev/msaf285

N/A

0DataRank · unranked

3 citations

Jacob L. Steenwyk, David C. Rinker, Dana A. Opulente, Abigail L. LaBella, Marie‐Claire Harrison +8 more

Aspergillus fumigatus mitogenomes and their influence on azole-resistant and -susceptible populations

npj Antimicrobials and Resistance(2025)10.1038/s44259-025-00083-6

N/A

0DataRank · unranked

5 citations

Laís Pontes, Johanna Rhodes, Jacob L. Steenwyk, Ling Lü, Thaila Fernanda dos Reis +3 more

Discovery of additional ancient genome duplications in yeasts

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.31.673279

N/A

0DataRank · unranked

2 citations

Linda C. Horianopoulos, Carla Gonçalves, Jacob L. Steenwyk, Ana Pontes, Paula Gonçalves +4 more

Gliotoxin, a Known Virulence Factor in the Major Human Pathogen Aspergillus fumigatus, Is Also Biosynthesized by Its Nonpathogenic Relative Aspergillus fischeri

mBio(2020)10.1128/mbio.03361-19

N/A

0DataRank · unranked

52 citations

Matthew E. Mead, Lilian Pereira Silva, Huzefa A. Raja, Jacob L. Steenwyk, Gustavo H. Goldman +3 more

Genomic and phenotypic analysis of COVID-19-associated pulmonary aspergillosis isolates of Aspergillus fumigatus

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.06.371971

N/A

0DataRank · unranked

4 citations

Matthew E. Mead, Patrícia Alves de Castro, Clara Valero, André Damásio, Renato Santos +12 more

Biosynthetic gene clusters, secondary metabolite profiles, and cards of virulence in the closest nonpathogenic relatives of Aspergillus fumigatus

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.09.033902

N/A

0DataRank · unranked

1 citations

Matthew E. Mead, Sonja L. Knowles, Huzefa A. Raja, Christopher D. Roberts, Oliver Bader +5 more

Aspergillus fumigatus Acetate Utilization Impacts Virulence Traits and Pathogenicity

mBio(2021)10.1128/mbio.01682-21

N/A

0DataRank · unranked

28 citations

Patrícia Alves de Castro, Lilian Pereira Silva, Clara Valero, Thaila Fernanda dos Reis, Raquel Saborano +15 more

Examining Signatures of Natural Selection in Antifungal Resistance Genes Across Aspergillus Fungi

Frontiers in Fungal Biology(2021)10.3389/ffunb.2021.723051

N/A

0DataRank · unranked

8 citations

Matthew E. Mead, Jacob L. Steenwyk, Olga Rivero-Menéndez, Ana Alastruey‐Izquierdo, Gustavo H. Goldman +2 more

Regulation of gliotoxin biosynthesis and protection in Aspergillus species

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.16.456458

N/A

0DataRank · unranked

1 citations

Ana Cristina Colabardini, Maísa Moraes, Maria Augusta Crivelente Horta, Sonja L. Knowles, Huzefa A. Raja +12 more

OrthoSNAP: a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.30.466607

N/A

0DataRank · unranked

1 citations

Dayna Goltz, Thomas J. Buida, Yuanning Li, Xing‐Xing Shen, Antonis Rokas +1 more

An evolutionary genomic approach reveals both conserved and species-specific genetic elements related to human disease in closely related Aspergillus fungi

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.01.433394

N/A

0DataRank · unranked

0 citations

Jacob L. Steenwyk, Lilian Pereira Silva, Patrícia Alves de Castro, Nauman Saeed, Falk Hillmann +3 more

Resistance-guided mining of bacterial genotoxins defines a family of DNA glycosylases

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.29.466481

N/A

0DataRank · unranked

0 citations

Katherine L. Wahl, Jacob L. Steenwyk, Antonis Rokas, Brandt F. Eichman, Noah P. Bradley

Extensive sequence divergence of non-coding regions between Aspergillus fumigatus , a major fungal pathogen of humans, and its relatives

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.26.465918

N/A

0DataRank · unranked

0 citations

Matthew E. Mead, Jacob L. Steenwyk, Gustavo H. Goldman, Antonis Rokas, Alec Brown

BioKIT: a versatile toolkit for processing and analyzing diverse types of sequence data

Genetics(2022)10.1093/genetics/iyac079

N/A

0DataRank · unranked

42 citations

Thomas J. Buida, Carla Gonçalves, Dayna Goltz, Grace Morales, Matthew E. Mead +7 more

Jacob L. Steenwyk

Indexed papers

Top data-sharing exemplar

Papers