An Operational Semantics for TOOPLE: A Statically-Typed Object-Oriented Programming Language. - Kim B. Bruce; Jonathan Crabtree; Gerlad Kanapathy (MFPS, 1993)

Safe and Decidable Type Checking in an Object-Oriented Language. - Kim B. Bruce; Jonathan Crabtree; Thomas P. Murtagh; Robert van Gent; Allyn Dimock; Robert Muller (OOPSLA, 1993)

Behavioral Control for Real-Time Simulated Human Agents. - John P. Granieri; Welton Becket; Barry D. Reich; Jonathan Crabtree; Norman I. Badler (SI3D, 1995)

Production and playback of human figure motion for 3D virtual environments. - John P. Granieri; Jonathan Crabtree; Norman I. Badler (VRAIS, 1995)

Production and Playback of Human Figure Motion for Visual Simulation. - John P. Granieri; Jonathan Crabtree; Norman I. Badler (ACM Trans. Model. Comput. Simul., 1995)

bioWidgets: data interaction components for genomics. - Steve Fischer; Jonathan Crabtree; Brian P. Brunk; M. Gibson; G. Christian Overton (Bioinform., 1999)

A relational schema for both array-based and SAGE gene expression experiments. - Christian J. Stoeckert Jr.; Angel D. Pizarro; Elisabetta Manduchi; M. Gibson; Brian P. Brunk; Jonathan Crabtree; Jonathan Schug; Shai Shen-Orr; G. Christian Overton (Bioinform., 2001)

K2/Kleisli and GUS: Experiments in integrated access to genomic data sources. - Susan B. Davidson; Jonathan Crabtree; Brian P. Brunk; Jonathan Schug; Val Tannen; G. Christian Overton; Christian J. Stoeckert Jr. (IBM Syst. J., 2001)

PlasmoDB: the Plasmodium genome resource. An integrated database providing tools for accessing, analyzing and mapping expression and sequence data (both finished and unfinished). - Amit Bahl; Brian P. Brunk; Ross L. Coppel; Jonathan Crabtree; Sharon J. Diskin; Martin J. Fraunholz; Gregory R. Grant; Dinesh Gupta; Robert L. Huestis; Jessica C. Kissinger; Philip Labo; Li Li; et al. (Nucleic Acids Res., 2002)

PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data. - Amit Bahl; Brian P. Brunk; Jonathan Crabtree; Martin J. Fraunholz; Bindu Gajria; Gregory R. Grant; Hagai Ginsburg; Dinesh Gupta; Jessica C. Kissinger; Philip Labo; Li Li; Matthew D. Mailman; et al. (Nucleic Acids Res., 2003)

ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites. - Li Li; Jonathan Crabtree; Steve Fischer; Deborah F. Pinney; Christian J. Stoeckert Jr.; L. David Sibley; David S. Roos (Nucleic Acids Res., 2004)

Integrating ddi metadata into the nara transcontinental persistent archive prototype via the oai-pmh. - Jewel H. Ward; Jonathan Crabtree (JCDL, 2008)

IDEA: Interactive Display for Evolutionary Analyses. - Amy Egan; Anup Mahurkar; Jonathan Crabtree; Jonathan H. Badger; Jane M. Carlton; Joana C. Silva (BMC Bioinform., 2008)

Extracting and Ingesting DDI Metadata and Digital Objects from a Data Archive into the iRODS Extension of the NARA TPAP Using the OAI-PMH. - Jewel H. Ward; Antoine de Torcy; Mason Chua; Jonathan Crabtree (eScience, 2009)

The HuRef Browser: a web resource for individual human genomics. - Nelson Axelrod; Yuan Lin; Pauline C. Ng; Timothy B. Stockwell; Jonathan Crabtree; Jiaqi Huang; Ewen Kirkness; Robert Strausberg; Marvin Frazier; J. Craig Venter; Saul Kravitz; Samuel Levy (Nucleic Acids Res., 2009)

Automated DDI Metadata Harvesting and Replication for Preservation Purposes within iRODS. - Jonathan Crabtree; Antoine de Torcy; Mason Chua (IASSIST, 2010)

Ergatis: a web interface and scalable software system for bioinformatics workflows. - Joshua Orvis; Jonathan Crabtree; Kevin Galens; Aaron Gussman; Jason M. Inman; Eduardo Lee; Sreenath Nampally; David R. Riley 002; Jaideep P. Sundaram; Victor Felix; Brett Whitty; Anup Mahurkar; et al. (Bioinform., 2010)

The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community. - Martha B. Arnaud; Marcus C. Chibucos; Maria C. Costanzo; Jonathan Crabtree; Diane O. Inglis; Adil Lotia; Joshua Orvis; Prachi Shah; Marek S. Skrzypek; Gail Binkley; Stuart R. Miyasato; Jennifer R. Wortman; et al. (Nucleic Acids Res., 2010)

Pathema: a clade-specific bioinformatics resource center for pathogen research. - Lauren M. Brinkac; Tanja Davidsen; Erin Beck; Anuradha Ganapathy; Elisabet Caler; Robert J. Dodson; A. Scott Durkin; Derek M. Harkins; Hernan Lorenzi; Ramana Madupu; Yinong Sebastian; Susmita Shrivastava; et al. (Nucleic Acids Res., 2010)

Virtual Archiving for Public Opinion Polls. - Jonathan Crabtree (iPRES, 2011)

Using Sybil for interactive comparative genomics of microbes on the web. - David R. Riley 002; Samuel V. Angiuoli; Jonathan Crabtree; Julie C. Dunning Hotopp; Hervé Tettelin (Bioinform., 2012)

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources. - Martha B. Arnaud; Gustavo C. Cerqueira; Diane O. Inglis; Marek S. Skrzypek; Jonathan Binkley; Marcus C. Chibucos; Jonathan Crabtree; Clinton Howarth; Joshua Orvis; Prachi Shah; Farrell Wymore; Gail Binkley; et al. (Nucleic Acids Res., 2012)

DataBridge: Building an E-science Collaboration Environment Tool for Linking Diverse Datasets into a Socio-metric Network. - Jonathan Crabtree (IASSIST Conference, 2013)

Expansion of the Odum Institute Dataverse Network: Forming Partnerships, Harnessing Infrastructures, and increasing Preservation of Research Data. - Jonathan Crabtree; Lynda Kellam (IASSIST Conference, 2013)

Circleator: flexible circular visualization of genome-associated data with BioPerl and SVG. - Jonathan Crabtree; Sonia Agrawal; Anup Mahurkar; Garry S. A. Myers; David A. Rasko; Owen White (Bioinform., 2014)

HMPDACC: a Human Microbiome Project Multi-omic data resource. - Heather Huot Creasy; Victor Felix; Jain Aluvathingal; Jonathan Crabtree; Olukemi O. Ifeonu; James Matsumura; Carrie McCracken; Lance Nickel; Joshua Orvis; Mike Schor; Michelle G. Giglio; Anup Mahurkar; et al. (Nucleic Acids Res., 2021)

Contextual in situ help for visual data interfaces. - Pramod Chundury; Mehmet Adil Yalçin; Jonathan Crabtree; Anup Mahurkar; Lisa M. Shulman; Niklas Elmqvist (Inf. Vis., 2023)

The Neuroscience Multi-Omic Archive: a BRAIN Initiative resource for single-cell transcriptomic and epigenomic data from the mammalian brain. - Seth A. Ament; Ricky S. Adkins; Robert Carter; Elena Chrysostomou; Carlo Colantuoni; Jonathan Crabtree; Heather Huot Creasy; Kylee Degatano; Victor Felix; Peter Gandt; Gwenn a Garden; Michelle G. Giglio; et al. (Nucleic Acids Res., 2023)