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D-Index & Metrics

Biology and Biochemistry

D-Index
50
Citations
16171
World Ranking
17423
National Ranking
7158

Overview

Thomas Girke is affiliated with the University of California, Riverside in the United States. Their research spans multiple areas within biochemistry, genetics, molecular biology, and agricultural and biological sciences. The scientist's work often focuses on molecular biology, plant science, insect science, oncology, and biophysics.

Girke's main research topics include:

  • Plant Molecular Biology Research
  • Plant responses to water stress
  • Plant nutrient uptake and metabolism
  • Gene expression and cancer classification
  • Histone Deacetylase Inhibitors Research
  • Peptidase Inhibition and Analysis
  • Bioinformatics and Genomic Networks

Their recent publications cover a range of subjects related to gene regulation, cellular stress resistance, and molecular mechanisms with implications for plant and human health. Notable recent papers include:

  • "Gene regulatory networks shape developmental plasticity of root cell types under water extremes in rice," 2022, Developmental Cell
  • "signatureSearch: environment for gene expression signature searching and functional interpretation," 2020, Nucleic Acids Research
  • "High-throughput small molecule screening reveals Nrf2-dependent and -independent pathways of cellular stress resistance," 2020, Science Advances
  • "Transcriptomic Evidence That Switching from Tobacco to Electronic Cigarettes Does Not Reverse Damage to the Respiratory Epithelium," 2022, Toxics
  • "MYC acetylated lysine residues drive oncogenic cell transformation and regulate select genetic programs for cell adhesion-independent growth and survival," 2023, Genes & Development

Thomas Girke frequently collaborates with several other researchers. Their most regular co-authors are:

  • Julia Bailey-Serres
  • Alexander Borowsky
  • Jianhai Zhang
  • Mauricio Reynoso
  • Germain Pauluzzi

Publications by Girke have appeared in a variety of scientific venues including:

  • Faculty of 1000 Research Ltd
  • bioRxiv (Cold Spring Harbor Laboratory)
  • Developmental Cell
  • Nucleic Acids Research
  • Genes & Development

Best Publications

  • Orchestrating high-throughput genomic analysis with Bioconductor

    Wolfgang Huber;Vincent J Carey;Robert Gentleman;Simon Anders

  • The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins.

    Clay J Carter;Songqin Pan;Jan Zouhar;Emily L. Avila

  • WUSCHEL protein movement mediates stem cell homeostasis in the Arabidopsis shoot apex

    Ram Kishor Yadav;Mariano Perales;Jérémy Gruel;Thomas Girke

  • Profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis.

    Angelika Mustroph;M. Eugenia Zanetti;M. Eugenia Zanetti;Charles J. H. Jang;Hans E. Holtan

  • Contrapuntal Networks of Gene Expression during Arabidopsis Seed Filling

    Sari A. Ruuska;Thomas Girke;Christoph Benning;John B. Ohlrogge

  • Cloning and characterization of micrornas from rice

    Jian-Kang Zhu;Ramanjulu Sunkar

  • ChemMine tools: an online service for analyzing and clustering small molecules

    Tyler W. H. Backman;Yiqun Cao;Thomas Girke

  • Microarray Analysis of Developing Arabidopsis Seeds

    Thomas Girke;Jim Todd;Sari Ruuska;Joe White

  • Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

    Piyada Juntawong;Thomas Girke;Jérémie Bazin;Jérémie Bazin;Julia Bailey-Serres

  • ChemmineR: a compound mining framework for R

    Yiqun Cao;Anna Charisi;Li-Chang Cheng;Tao Jiang

  • Gene expression map of the Arabidopsis shoot apical meristem stem cell niche.

    Ram Kishor Yadav;Thomas Girke;Sumana Pasala;Mingtang Xie

  • Differential mRNA translation contributes to gene regulation under non-stress and dehydration stress conditions in Arabidopsis thaliana.

    Riki Kawaguchi;Thomas Girke;Elizabeth A. Bray;Julia Bailey-Serres

  • Identification of a novel D6‐acyl‐group desaturase by targeted gene disruption in Physcomitrella patens

    Thomas Girke;Hermann Schmidt;Ulrich Zahringer;Ralf Reski

  • A New Set of Arabidopsis Expressed Sequence Tags from Developing Seeds. The Metabolic Pathway from Carbohydrates to Seed Oil

    Joseph A. White;Jim Todd;Tom Newman;Nicole Focks

  • A maximum common substructure-based algorithm for searching and predicting drug-like compounds

    Yiqun Cao;Tao Jiang;Thomas Girke

  • Tomato Susceptibility to Root-Knot Nematodes Requires an Intact Jasmonic Acid Signaling Pathway

    Kishor K. Bhattarai;Qi-Guang Xie;Sophie Mantelin;Usha Bishnoi

  • Annotating genes of known and unknown function by large-scale coexpression analysis.

    Kevin Horan;Charles Jang;Julia Bailey-Serres;Ron Mittler

  • Arabidopsis LATERAL ORGAN BOUNDARIES negatively regulates brassinosteroid accumulation to limit growth in organ boundaries

    Elizabeth M. Bell;Wan-ching Lin;Aman Y. Husbands;Lifeng Yu

  • systemPipeR: NGS workflow and report generation environment

    Tyler W. H. Backman;Thomas Girke

  • Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis

    Hailing Jin;Vladimir Vacic;Thomas Girke;Stefano Lonardi

Frequent Co-Authors

Julia Bailey-Serres
Julia Bailey-Serres University of California, Riverside
Tao Jiang
Tao Jiang University of California, Riverside
Christoph Benning
Christoph Benning Michigan State University
John B. Ohlrogge
John B. Ohlrogge Michigan State University
Natasha V. Raikhel
Natasha V. Raikhel University of California, Riverside
Sten Stymne
Sten Stymne Swedish University of Agricultural Sciences
Philip L. De Jager
Philip L. De Jager Columbia University
Simon Melov
Simon Melov Buck Institute for Research on Aging
Andrew P. Morris
Andrew P. Morris University of Liverpool
Inês Barroso
Inês Barroso University of Exeter

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