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

Patrick M. Shih

Lawrence Berkeley National Laboratory

ORCID: 0000-0002-2119-3345

Also affiliated with University of California System, Innovative Genomics Institute, Genomics (United Kingdom), Joint BioEnergy Institute, University of California, Berkeley

Environmental ScienceBiochemistry, Genetics and Molecular Biology

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 6%percentile
0.301Author 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.

Draft Genome Sequence of Agrobacterium fabrum ARqua1

Microbiology Resource Announcements(2020)10.1128/mra.00506-20
Top 55%
0.301DataRank
Top 55%4 citations

Pablo Cruz-Morales, William M. Moore, Allison N. Pearson, Jay D. Keasling, Henrik Vibe Scheller +2 more

Papers

Driven by 18 papers — median percentile 45. Top paper: “The trans-regulatory landscape of gene networks in plants”.

The trans-regulatory landscape of gene networks in plants

Cell Systems(2023)10.1016/j.cels.2023.05.002
N/A
0.581DataRank · unranked
47 citations

Andy Zhou, Baohua Li, Kasey Markel, Izaiah J. Ornelas, Patrick M. Shih +1 more

Alternative Identification of Glycosides Using MS/MS Matching with an In Silico-Modified Aglycone Mass Spectra Library

Analytical Chemistry(2023)10.1021/acs.analchem.3c00957
N/A
0.471DataRank · unranked
9 citations

Yuanyue Li, Arpana Vaniya, Patrick M. Shih, Oliver Fiehn, Elys P. Rodríguez

Draft Genome Sequence of Agrobacterium fabrum ARqua1

Microbiology Resource Announcements(2020)10.1128/mra.00506-20
Top 55%
0.301DataRank
Top 55%4 citations

Pablo Cruz-Morales, William M. Moore, Allison N. Pearson, Jay D. Keasling, Henrik Vibe Scheller +2 more

Plant glycosyltransferases for expanding bioactive glycoside diversity

Natural Product Reports(2023)10.1039/d2np00077f
N/A
0DataRank · unranked
51 citations

Collin R. Barnum, Sophia Tang, Patrick M. Shih, Sasilada Sirirungruang

Deep-branching evolutionary intermediates reveal structural origins of form I rubisco

Current Biology(2023)10.1016/j.cub.2023.10.053
N/A
0DataRank · unranked
12 citations

Benjamin Kaeser, Lin-Xing Chen, Jacob West-Roberts, Leah J. Taylor‐Kearney, Adi Lavy +7 more

A map of the rubisco biochemical landscape

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.27.559826
N/A
0DataRank · unranked
4 citations

Naiya R. Philips, Luke M. Oltrogge, Sebastian Lindner, Yi-Chin Candace Tsai, Benoit de Pins +15 more

Systematic identification of transcriptional activator domains from non-transcription factor proteins in plants and yeast

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.12.557247
N/A
0DataRank · unranked
2 citations

Kasey Markel, Jordan Stefani, Max V. Staller, Patrick M. Shih, Niklas F. C. Hummel

An iron (II) dependent oxygenase performs the last missing step of plant lysine catabolism

Nature Communications(2020)10.1038/s41467-020-16815-3
N/A
0DataRank · unranked
15 citations

Jacquelyn M. Blake-Hedges, J.H. Pereira, John A. Hangasky, Michael S. Belcher, William M. Moore +16 more

Binary vector copy number engineering improves Agrobacterium-mediated transformation

Nature Biotechnology(2024)10.1038/s41587-024-02462-2
N/A
0DataRank · unranked
36 citations

Lucas Waldburger, Michael Busche, Gina M. Geiselman, Liam D. Kirkpatrick, Alexander J. Kehl +13 more

Engineered plants provide a photosynthetic platform for the production of diverse human milk oligosaccharides

Nature Food(2024)10.1038/s43016-024-00996-x
N/A
0DataRank · unranked
28 citations

Bruna Paviani, Garret Couture, Chad Masarweh, Ye Chen, Yu-Ping Huang +7 more

Systematic identification of transcriptional activation domains from non-transcription factor proteins in plants and yeast

Cell Systems(2024)10.1016/j.cels.2024.05.007
N/A
0DataRank · unranked
14 citations

Kasey Markel, Jordan Stefani, Max V. Staller, Patrick M. Shih, Niklas F. C. Hummel

A map of the rubisco biochemical landscape

Nature(2025)10.1038/s41586-024-08455-0
N/A
0DataRank · unranked
65 citations

Naiya R. Phillips, Luke M. Oltrogge, Sebastian Lindner, Leah J. Taylor‐Kearney, Yi-Chin Candace Tsai +16 more

A substrate-multiplexed platform for profiling enzymatic potential of plant family 1 glycosyltransferases

Nature Communications(2025)10.1038/s41467-025-61530-6
N/A
0DataRank · unranked
10 citations

Vincent Blay, Elys P. Rodríguez, Yasmine F Scott, Khanh M. Vuu, Collin R. Barnum +6 more

Evolutionary discovery and characterization of fungal transcriptional activators using active learning

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.12.675635
N/A
0DataRank · unranked
2 citations

Hunter Nisonoff, Marissa Zintel, Liam D. Kirkpatrick, Angelica Lam, Nathan Lanclos +4 more

Binary vector origin predictably determines Agrobacterium -mediated transformation outcome across eukaryotic kingdoms

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.11.18.688525
N/A
0DataRank · unranked
1 citations

Michael Busche, Ziyu Dai, Nathan Lapp, Gina M. Geiselman, Jiayuan Jia +13 more

Plant-based production of diverse human milk oligosaccharides

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.18.558286
N/A
0DataRank · unranked
2 citations

Bruna Paviani, Garret Couture, Chad Masarweh, Ye Chen, Yu‐Ping Huang +6 more

Utilizing Plant Synthetic Biology to Improve Human Health and Wellness

Frontiers in Plant Science(2021)10.3389/fpls.2021.691462
N/A
0DataRank · unranked
41 citations

Benjamin J. Endelman, Patrick M. Shih, Collin R. Barnum

Optimization of Heterologous Glucoraphanin Production In Planta

ACS Synthetic Biology(2022)10.1021/acssynbio.2c00030
N/A
0DataRank · unranked
12 citations

Benjamin J. Endelman, Izaiah J. Ornelas, Roxanna M. Pignolet, Patrick M. Shih, Collin R. Barnum