🏆 Finalist — NIH Data Sharing Index (“S-Index”) Challenge

Tomáš Brůna

Lawrence Berkeley National Laboratory

ORCID: 0000-0001-9811-5532

Also affiliated with Joint Genome Institute

Biochemistry, Genetics and Molecular BiologyAgricultural 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 4%percentile
0.896Author DataRank

Indexed papers

2in 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 2 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 →

Top data-sharing exemplar

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

A chromosome-length genome assembly and annotation of blackberry ( Rubus argutus , cv. “Hillquist”)

G3 Genes Genomes Genetics(2022)10.1093/g3journal/jkac289
Top 30%
0.674DataRank
Top 30%31 citations

Rishi Aryal, Olga Dudchenko, Daniel James Sargent, Daniel G. Mead, Matteo Buti +21 more

Papers

Driven by 15 papers — median percentile 54. Top paper: “BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database”.

BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database

NAR Genomics and Bioinformatics(2021)10.1093/nargab/lqaa108
N/A
1.1DataRank · unranked
1837 citations

Katharina J. Hoff, Alexandre Lomsadze, Mario Stanke, Mark Borodovsky, Tomáš Brůna

GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteins

NAR Genomics and Bioinformatics(2020)10.1093/nargab/lqaa026
N/A
0.956DataRank · unranked
584 citations

Alexandre Lomsadze, Mark Borodovsky, Tomáš Brůna

A chromosome-length genome assembly and annotation of blackberry ( Rubus argutus , cv. “Hillquist”)

G3 Genes Genomes Genetics(2022)10.1093/g3journal/jkac289
Top 30%
0.674DataRank
Top 30%31 citations

Rishi Aryal, Olga Dudchenko, Daniel James Sargent, Daniel G. Mead, Matteo Buti +21 more

A chromosome-length genome assembly and annotation of blackberry ( Rubus argutus , cv. ‘Hillquist’)

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.04.28.489789
Top 62%
0.222DataRank
Top 62%3 citations

Rishi Aryal, Olga Dudchenko, Daniel James Sargent, Daniel G. Mead, Matteo Buti +21 more

BRAKER2: Automatic Eukaryotic Genome Annotation with GeneMark-EP+ and AUGUSTUS Supported by a Protein Database

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.10.245134
N/A
0DataRank · unranked
143 citations

Katharina J. Hoff, Alexandre Lomsadze, Mario Stanke, Mark Borodovsky, Tomáš Brůna

TSEBRA: transcript selector for BRAKER

BMC Bioinformatics(2021)10.1186/s12859-021-04482-0
N/A
0DataRank · unranked
381 citations

Katharina J. Hoff, Tomáš Brůna, Mark Borodovsky, Mario Stanke, Lars Gabriel

TSEBRA: Transcript Selector for BRAKER

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.07.447316
N/A
0DataRank · unranked
14 citations

Katharina J. Hoff, Tomáš Brůna, Mark Borodovsky, Mario Stanke, Lars Gabriel

Disproportionate presence of adenosine in mitochondrial and chloroplast DNA of Chlamydomonas reinhardtii

iScience(2020)10.1016/j.isci.2020.102005
N/A
0DataRank · unranked
11 citations

Alli L. Gombolay, Penghao Xu, Taehwan Yang, Youngkyu Jeon, Sathya Balachander +10 more

Galba: genome annotation with miniprot and AUGUSTUS

BMC Bioinformatics(2023)10.1186/s12859-023-05449-z
N/A
0DataRank · unranked
111 citations

Heng Li, Joseph Guhlin, Daniel Honsel, Steffen Herbold, Mario Stanke +5 more

BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS and TSEBRA

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.10.544449
N/A
0DataRank · unranked
239 citations

Tomáš Brůna, Katharina J. Hoff, Matthis Ebel, Alexandre Lomsadze, Mark Borodovsky +2 more

A new gene finding tool GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.13.524024
N/A
0DataRank · unranked
63 citations

Alexandre Lomsadze, Mark Borodovsky, Tomáš Brůna

BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA

Genome Research(2024)10.1101/gr.278090.123
N/A
0DataRank · unranked
574 citations

Tomáš Brůna, Katharina J. Hoff, Matthis Ebel, Alexandre Lomsadze, Mark Borodovsky +2 more

GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes

Genome Research(2024)10.1101/gr.278373.123
N/A
0DataRank · unranked
142 citations

Alexandre Lomsadze, Mark Borodovsky, Tomáš Brůna

GeneMark-EP and -EP+: eukaryotic gene prediction with self-training in the space of genes and proteins

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2019.12.31.891218
N/A
0DataRank · unranked
5 citations

Alexandre Lomsadze, Mark Borodovsky, Tomáš Brůna

The control of prickle formation in Rubus

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.64898/2025.12.22.695586
N/A
0DataRank · unranked
2 citations

Tom Poorten, Andrew S. Fister, Cherie Ochsenfeld, Joel Reiner, Allie Sandra Castillo +23 more