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Paramvir Dehal · SciRah

Researcher profile · OpenAlex

Paramvir Dehal

Lawrence Berkeley National Laboratory
Lawrence Berkeley National Laboratory, Berkeley, CA, USA
US

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Paramvir Dehal — researcher profile on SciRah

ORCID iD 0000-0001-5810-2497

Citations: 33.1K
h-index: 27
i10-index: 34
Works: 100

From OpenAlex.

Genomics and Phylogenetic StudiesBacterial Genetics and BiotechnologyMicrobial Community Ecology and Physiology

Most-cited papers

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2010PLoS ONE15K citations Open access
OpenAlex
FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2009Molecular Biology and Evolution5,585 citations Open access
OpenAlex
The Draft Genome of Ciona intestinalis : Insights into Chordate and Vertebrate Origins
Paramvir Dehal, Yutaka Satou, Robert K. Campbell, Jarrod Chapman +83 more
2002Science1,639 citations Open access
OpenAlex
KBase: The United States Department of Energy Systems Biology Knowledgebase
Adam P. Arkin, Robert W. Cottingham, Christopher S. Henry, Nomi L. Harris +77 more
2018Nature Biotechnology1,616 citations Open access
OpenAlex
Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes
Samuel A. J. R. Aparicio, Jarrod Chapman, Elia Stupka, Nicholas H. Putnam +37 more
2002Science1,590 citations
OpenAlex
Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate
Paramvir Dehal, Jeffrey L. Boore
2005PLoS Biology1,522 citations Open access
OpenAlex
Phytophthora Genome Sequences Uncover Evolutionary Origins and Mechanisms of Pathogenesis
Brett M. Tyler, Sucheta Tripathy, Xuemin Zhang, Paramvir Dehal +49 more
2006Science1,069 citations Open access
OpenAlex
A genomic catalog of Earth’s microbiomes
Stephen Nayfach, Simon Roux, R. Seshadri, Daniel Udwary +96 more
2020Nature Biotechnology878 citations Open access
OpenAlex
Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis
Stephen B. Goodwin, Sarrah Ben M’Barek, Braham Deep Singh Dhillon, Alexander H. J. Wittenberg +53 more
2011PLoS Genetics607 citations Open access
OpenAlex
Environmental Genomics Reveals a Single-Species Ecosystem Deep Within Earth
Dylan C. Chivian, Eoin Brodie, Eric J. Alm, David E. Culley +16 more
2008Science521 citations Open access
OpenAlex
Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis
Thomas W. Jeffries, Igor V. Grigoriev, Jane Grimwood, José M. Laplaza +9 more
2007Nature Biotechnology494 citations Open access
OpenAlex
Signatures of Adaptation to Obligate Biotrophy in the Hyaloperonospora arabidopsidis Genome
Laura A. Baxter, Sucheta Tripathy, Naveed Ishaque, Nico Boot +48 more
2010Science453 citations Open access
OpenAlex
MicrobesOnline: an integrated portal for comparative and functional genomics
Paramvir Dehal, Marcin P. Joachimiak, M. N. Price, J. T. Bates +9 more
2009Nucleic Acids Research432 citations Open access
OpenAlex
The DNA sequence and biology of human chromosome 19
Jane Grimwood, Laurie A. Gordon, Anne S. Olsen, Astrid Y. Terry +94 more
2004Nature352 citations Open access
OpenAlex
Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii
Neil F. W. Saunders, Torsten Thomas, Paul M. G. Curmi, John S. Mattick +21 more
2003Genome Research267 citations Open access
OpenAlex
Human Chromosome 19 and Related Regions in Mouse: Conservative and Lineage-Specific Evolution
Paramvir Dehal, Paul F. Predki, Anne S. Olsen, Art Kobayashi +17 more
2001Science215 citations
OpenAlex
Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia \ncoli
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2008OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)143 citations Open access
OpenAlex
Cell-Wide Responses to Low-Oxygen Exposure inDesulfovibrio vulgarisHildenborough
Aindrila Mukhopadhyay, Alyssa M. Redding, Marcin P. Joachimiak, Adam P. Arkin +12 more
2007Journal of Bacteriology118 citations Open access
OpenAlex
Metagenome-assembled genome extraction and analysis from microbiomes using KBase
Dylan C. Chivian, Sean P. Jungbluth, Paramvir Dehal, Elisha M. Wood‐Charlson +13 more
2022Nature Protocols109 citations Open access
OpenAlex
Orthologous Transcription Factors in Bacteria Have Different Functions and Regulate Different Genes
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2007PLoS Computational Biology109 citations Open access
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A phylogenomic gene cluster resource: the Phylogenetically Inferred Groups (PhIGs) database
Paramvir Dehal, Jeffrey L. Boore
2006BMC Bioinformatics84 citations Open access
OpenAlex
A universal TagModule collection for parallel genetic analysis of microorganisms
Julia Oh, Eula Fung, Morgan N. Price, Paramvir Dehal +5 more
2010Nucleic Acids Research55 citations Open access
OpenAlex
Systematic mapping of two component response regulators to gene targets in a model sulfate reducing bacterium
Lara Rajeev, Eric G. Luning, Paramvir Dehal, Morgan N. Price +2 more
2011Genome biology52 citations Open access
OpenAlex
Snapshot of iron response in Shewanella oneidensis by gene network reconstruction
Yunfeng Yang, Daniel P. Harris, Feng Luo, Wenlu Xiong +8 more
2009BMC Genomics51 citations Open access
OpenAlex
Metabolic flux analysis of Shewanella spp. reveals evolutionary robustness in central carbon metabolism
Yinjie Tang, Héctor García Martín, Paramvir Dehal, Adam M. Deutschbauer +4 more
2008Biotechnology and Bioengineering49 citations
OpenAlex
Homology-Driven Assembly of a Sequence-Ready Mouse BAC Contig Map Spanning Regions Related to the 46-Mb Gene-Rich Euchromatic Segments of Human Chromosome 19
Joomyeong Kim, Laurie A. Gordon, Paramvir Dehal, Hummy Badri +9 more
2001Genomics38 citations
OpenAlex
Genomic structural differentiation in Solanum: comparative mapping of the A- and E-genomes
F. Perez, Angela Manzaba Menéndez, Paramvir Dehal, Carlos F. Quirós
1999Theoretical and Applied Genetics34 citations
OpenAlex
RegPrecise web services interface: programmatic access to the transcriptional regulatory interactions in bacteria reconstructed by comparative genomics
Pavel S. Novichkov, Thomas Scott Brettin, E. S. Novichkova, Paramvir Dehal +3 more
2012Nucleic Acids Research27 citations Open access
OpenAlex
metaMicrobesOnline: phylogenomic analysis of microbial communities
Dylan C. Chivian, Paramvir Dehal, Keith Keller, Adam P. Arkin
2012Nucleic Acids Research23 citations Open access
OpenAlex
Publisher Correction: A genomic catalog of Earth’s microbiomes
Stephen Nayfach, Simon Roux, R. Seshadri, Daniel Udwary +96 more
2020Nature Biotechnology22 citations Open access
OpenAlex
Complete genome sequence of Pseudomonas stutzeri strain RCH2 isolated from a Hexavalent Chromium [Cr(VI)] contaminated site
Romy Chakraborty, Hannah L. Woo, Paramvir Dehal, Robert M. Walker +7 more
2017Standards in Genomic Sciences20 citations Open access
OpenAlex
Author Correction: A genomic catalog of Earth’s microbiomes
Stephen Nayfach, Simon Roux, R. Seshadri, Daniel Udwary +96 more
2021Nature Biotechnology19 citations Open access
OpenAlex
FastBLAST: Homology Relationships for Millions of Proteins
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2008PLoS ONE16 citations Open access
OpenAlex
RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species
David Kainer, Matthew J. Lane, Kyle A. Sullivan, J Izaak Miller +20 more
2025GigaScience11 citations Open access
OpenAlex
A KBase case study on genome-wide transcriptomics and plant primary metabolism in response to drought stress in Sorghum.
Sunita Kumari, Vivek Kumar, Kathleen R. Beilsmith, Samuel M. D. Seaver +13 more
2021Current Plant Biology9 citations Open access
OpenAlex
KBase: Open-source Platform for Collaborative Biological Data Analysis and Publication
Elisha M. Wood‐Charlson, Christopher Scott Henry, Paramvir Dehal, Gazi Mahmud +37 more
2026Journal of Molecular Biology8 citations Open access
OpenAlex
A bacterial sensor taxonomy across earth ecosystems for machine learning applications
Helen Park, Marcin P. Joachimiak, Sean P. Jungbluth, Ziming Yang +4 more
2023mSystems5 citations Open access
OpenAlex
High-Quality Draft Genome Sequence of Desulfovibrio carbinoliphilus FW-101-2B, an Organic Acid-Oxidizing Sulfate-Reducing Bacterium Isolated from Uranium(VI)-Contaminated Groundwater
Bradley D. Ramsay, Chiachi Hwang, Hannah L. Woo, Sue L. Carroll +27 more
2015Genome Announcements3 citations Open access
OpenAlex
Publisher Correction: Metagenome-assembled genome extraction and analysis from microbiomes using KBase
Dylan C. Chivian, Sean P. Jungbluth, Paramvir Dehal, Elisha M. Wood‐Charlson +13 more
2022Nature Protocols2 citations Open access
OpenAlex
Data coherence over data volume drives generalisable genome-based prediction of microbial carbon utilisation (dataset)
Dileep Kishore, Priya Ranjan, Christopher J. Neely, Mikaela Cashman +1 more
2026Zenodo (CERN European Organization for Nuclear Research)1 citations Open access
OpenAlex
Leveraging LLMs and Web-based Visualizations for Profiling Bacterial Host Organisms and Genetic Toolboxes
Gilchan Park, Vivek K. Mutalik, Christopher J. Neely, Carlos Soto +2 more
2024Workshop on Biomedical Natural Language Processing (BioNLP)1 citations Open access
OpenAlex
RWRtoolkit Narrative
David Kainer, Matthew J. Lane, Kyle A. Sullivan, Jason Miller +20 more
2024OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)1 citations Open access
OpenAlex
Genome Extraction from Shotgun Metagenome Sequence Data
Chivian, Dylan, Sean P. Jungbluth, Paramvir Dehal, Richard Shane Canon +12 more
2021OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)1 citations Open access
OpenAlex
Moab Desert Crust - Sample 4E
Dylan C. Chivian, Sean P. Jungbluth, Paramvir Dehal, Elisha M. Wood‐Charlson +13 more
2021OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)1 citations Open access
OpenAlex
A Genomic Catalogue of Earth’s Microbiomes - Introductory KBase Narrative
Stephen Nayfach, Simon Roux, R. Seshadri, Daniel Udwary +27 more
2020OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)1 citations Open access
OpenAlex
Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli
Morgan N. Price, Paramvir Dehal, Adam P. Arkin
2008Genome biology1 citations Open access
OpenAlex
Genomic sequence of the xylose fermenting, insect-inhabiting yeast, Pichia stipitis
Thomas W. Jeffries, Igor V. Grigoriev, Jane Grimwood, José M. Laplaza +9 more
2007University of North Texas Digital Library (University of North Texas)1 citations Open access
OpenAlex
From Lakehouse to Labmate: KBase's Vision for AI-Enabled Scientific Discovery
Mikaela Cashman, David Lyon, Christopher J. Neely, Benjamin H. Allen +9 more
2026Zenodo (CERN European Organization for Nuclear Research)0 citations Open access
OpenAlex
Data coherence over data volume drives generalisable genome-based prediction of microbial carbon utilisation
Dileep Kishore, Priya Ranjan, Christopher J. Neely, Mikaela Cashman +13 more
2026bioRxiv (Cold Spring Harbor Laboratory)0 citations Open access
OpenAlex
Advancing FAIR data towards comparable, organized, predictive AI-ready data for community validation
Elisha M. Wood‐Charlson, Wolmar Nyberg Åkerström, Lindsey Anderson, Mikayla A. Borton +27 more
2026Communications Biology0 citations Open access
OpenAlex

SciRah Score

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Citations per year

9 in 2026

20122026

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Adam P. ArkinLawrence Berkeley National Laboratory×32
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Adam P. Arkin — researcher profile on SciRah
Dylan C. ChivianLawrence Berkeley National Laboratory×13
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Dylan C. Chivian — researcher profile on SciRah
Richard Shane CanonLawrence Berkeley National Laboratory×10
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Richard Shane Canon — researcher profile on SciRah
Elisha M. Wood‐Charlson

Lawrence Berkeley National Laboratory

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Christopher S. HenryArgonne National Laboratory×9

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Sean P. JungbluthLawrence Berkeley National Laboratory×9

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Morgan N. PriceLawrence Berkeley National Laboratory×8

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Robert W. CottinghamOak Ridge National Laboratory×8

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William J. RiehlLawrence Berkeley National Laboratory×8

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Marcin P. JoachimiakLawrence Berkeley National Laboratory×8

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Miriam LandOak Ridge National Laboratory×8

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Benjamin H. AllenOak Ridge National Laboratory×7

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Affiliation history

Agency for Science, Technology and Research2002
Lawrence Livermore National Laboratory2001
Oak Ridge National Laboratory2012
Russian Academy of Sciences2012
Pacific Northwest National Laboratory2008
Lawrence Berkeley National Laboratory2005–2026
University of Georgia2025
University of Toronto2010
Sanford Burnham Prebys Medical Discovery Institute2012
Joint Genome Institute2001–2011