Jim Balhoff

  • PhD
  • Researcher
  • Research Programmer
  • RTI International
  • Agricultural and Biological Sciences

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Publications

Finding Our Way through Phenotypes

Deans A, Lewis S, Huala E, Anzaldo S, Ashburner M, Balhoff J, et al.

PLoS Biology (2015)

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Toward Synthesizing Our Knowledge of Morphology: Using Ontologies and Machine Reasoning to Extract Presence/Absence Evolutionary Phenotypes across Studies

Dececchi T, Balhoff J, Lapp H, Mabee P

Systematic Biology (2015)

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Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex

Balhoff J, Dahdul W, Dececchi T, Lapp H, Mabee P, Vision T

Journal of Biomedical Semantics (2014)

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Folding wings like a cockroach: a review of transverse wing folding ensign wasps (Hymenoptera: Evaniidae: Afrevania and Trissevania).

Mikó I, Copeland R, Balhoff J, Yoder M, Deans A

PloS one (2014)

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Presence-absence reasoning for evolutionary phenotypes

Balhoff J, Dececchi T, Mabee P, Lapp H

Proceedings of Phenotype Day of the Bio-ontologies SIG at ISMB 2014 (2014)

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Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.

Haendel M, Balhoff J, Bastian F, Blackburn D, Blake J, Bradford Y, et al.

Journal of Biomedical Semantics (2014)

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A Semantic Model for Species Description Applied to the Ensign Wasps (Hymenoptera: Evaniidae) of New Caledonia.

Balhoff J, Mikó I, Yoder M, Mullins P, Deans A

Systematic biology (2013)

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An overview of the BioCreative 2012 Workshop Track III: interactive text mining task.

Arighi C, Carterette B, Cohen K, Krallinger M, Wilbur W, Fey P, et al.

Database : the journal of biological databases and curation (2013)

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Matching arthropod anatomy ontologies to the Hymenoptera Anatomy Ontology: results from a manual alignment.

Bertone M, Mikó I, Yoder M, Seltmann K, Balhoff J, Deans A

Database : the journal of biological databases and curation (2013)

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Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient

Stoltzfus A, Lapp H, Matasci N, Deus H, Sidlauskas B, Zmasek C, et al.

BMC Bioinformatics (2013)

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The vertebrate taxonomy ontology: a framework for reasoning across model organism and species phenotypes.

Midford P, Dececchi T, Balhoff J, Dahdul W, Ibrahim N, Lapp H, et al.

Journal of Biomedical Semantics (2013)

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500,000 fish phenotypes: The new informatics landscape for evolutionary and developmental biology of the vertebrate skeleton

Mabee P, Balhoff J, Dahdul W, Lapp H, Midford P, Vision T, et al.

Journal of Applied Ichthyology (2012)

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A Unified Anatomy Ontology of the Vertebrate Skeletal System

Dahdul W, Balhoff J, Blackburn D, Diehl A, Haendel M, Hall B, et al.

PLoS ONE (2012)

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A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions

Seltmann K, Yoder M, Miko I, Forshage M, Bertone M, Agosti D, et al.

Journal of Hymenoptera Research (2012)

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A revision of Evaniscus (Hymenoptera, Evaniidae) using ontology-based semantic phenotype annotation

Mullins P, Kawada R, Balhoff J, Deans A

ZooKeys (2012)

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NeXML: rich, extensible, and verifiable representation of comparative data and metadata

Vos R, Balhoff J, Caravas J, Holder M, Lapp H, Maddison W, et al.

Systematic Biology (2012)

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Time to change how we describe biodiversity.

Deans A, Yoder M, Balhoff J

Trends in Ecology & Evolution (2012)

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Integrating Anatomy and Phenotype Ontologies with Taxonomic Hierarchies

Balhoff J, Midford P, Lapp H

Proceedings of the International Conference on Biomedical Ontology (2011)

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Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature.

Dahdul W, Balhoff J, Engeman J, Grande T, Hilton E, Kothari C, et al.

PloS one (2010)

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Phenex: ontological annotation of phenotypic diversity.

Balhoff J, Dahdul W, Kothari C, Lapp H, Lundberg J, Mabee P, et al.

PloS one (2010)

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The teleost anatomy ontology: anatomical representation for the genomics age.

Dahdul W, Lundberg J, Midford P, Balhoff J, Lapp H, Vision T, et al.

Systematic biology (2010)

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Development and application of a phylogenomic toolkit: resolving the evolutionary history of Madagascar's lemurs.

Horvath J, Weisrock D, Embry S, Fiorentino I, Balhoff J, Kappeler P, et al.

Genome research (2008)

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The 2006 NESCent Phyloinformatics Hackathon: A Field Report

Lapp H, Bala S, Balhoff J, Bouck A, Goto N, Holder M, et al.

Evolutionary Bioinformatics Online (2007)

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Evolutionary analysis of the well characterized endo16 promoter reveals substantial variation within functional sites.

Balhoff J, Wray G

Proceedings of the National Academy of Sciences of the United States of America (2005)

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The evolution of transcriptional regulation in eukaryotes.

Wray G, Hahn M, Abouheif E, Balhoff J, Pizer M, Rockman M, et al.

Molecular Biology and Evolution (2003)

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Highly specific and quantitative activation of STATs in 3T3-L1 adipocytes.

Balhoff J, Stephens J

Biochemical and biophysical research communications (1998)

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The regulation and activation of STATs in 3T3-L1 adipocytes

Lumpkin S, Balhoff J, Stephens J

SAAS Bulletin: Biochem. & Biotech. (1998)

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Professional experience

Research Programmer

RTI International

August 2015 - Present

Bioinformatics specialist

National Evolutionary Synthesis Center

May 2005 - July 2015 (10 years 2 months)

Education history

Duke University

Ph.D., Biology

August 1999 - May 2005 (5 years 9 months)

Louisiana State University

B.S., Zoology

August 1994 - May 1998 (3 years 9 months)