Parallel computation and FASTA: confronting the problem of parallel database search for a fast sequence comparison algorithm. - Perry L. Miller; Prakash M. Nadkarni; N. M. Carriero (Comput. Appl. Biosci., 1991)

Harnessing networked workstations as a powerful parallel computer: a general paradigm illustrated using three programs for genetic linkage analysis. - Perry L. Miller; Prakash M. Nadkarni; P. A. Bercovitz (Comput. Appl. Biosci., 1992)

Comparing machine-independent versus machine-specific parallelization of a software platform for biological sequence comparison. - Perry L. Miller; Prakash M. Nadkarni; William R. Pearson (Comput. Appl. Biosci., 1992)

Parallel Computation for Medicine and Biology: Applications of Linda At Yale University. - Dean F. Sittig; Mark A. Shifman; Prakash M. Nadkarni; Perry L. Miller (Int. J. High Perform. Comput. Appl., 1992)

A modification of the ALIGN program to assist visual interpretation of mutated sequences. - Prakash M. Nadkarni; Stephen T. Reeders; Jing Zhou (Comput. Appl. Biosci., 1994)

Application of Technology: Internet-based Support for Bioscience Research: A Collaborative Genome center for Human Chromosome 12. - Perry L. Miller; Prakash M. Nadkarni; Kenneth K. Kidd; Kei-Hoi Cheung; David C. Ward; Amy Banks; Patricia Bray-Ward; Lisa Cupelli; Valerie Herdman; Ivonne Marondel; Kate Montcomery; Beatrice Renault; et al. (J. Am. Medical Informatics Assoc., 1995)

Application of Technology: ModelDB: An Environment for Running and Storing Computational Models and Their Results Applied to Neuroscience. - Bret E. Peterson; Matthew D. Healy; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (J. Am. Medical Informatics Assoc., 1996)

DNA Workbench: A Database Package to Manage Regional Physical Mapping. - Prakash M. Nadkarni; Kei-Hoi Cheung; C. Castiglione; Perry L. Miller; Kenneth K. Kidd (J. Comput. Biol., 1996)

Mapdiff: determining differences between two genomic maps. - Prakash M. Nadkarni (Comput. Appl. Biosci., 1997)

ACT/DB: A Clinical Trials Database Being Refined on a Pilot Basis at Two Medical Centers. - Cynthia Brandt; Prakash M. Nadkarni; Lee Schacter; Daniel Zelterman; Yuli Li; John M. Fisk; Edward K. Shultz; Perry L. Miller (AMIA, 1998)

Automatic query mapping among genomic databases: a pilot exploration. - Kei-Hoi Cheung; Prakash M. Nadkarni; Perry L. Miller; Dong-Guk Shin (AMIA, 1998)

A metadata approach to query interoperation between molecular biology databases. - Kei-Hoi Cheung; Prakash M. Nadkarni; Dong-Guk Shin (Bioinform., 1998)

Mapmerge: merge genomic maps. - Prakash M. Nadkarni (Bioinform., 1998)

Application of Information Technology: Data Extraction and Ad Hoc Query of an Entity - Attribute - Value Database. - Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 1998)

Application of Technology: Managing Attribute-Value Clinical Trials Data Using the ACT/DB Client-Server Database System. - Prakash M. Nadkarni; Cynthia Brandt; Sandra J. Frawley; Frederick G. Sayward; Robin Einbinder; Daniel Zelterman; Lee Schacter; Perry L. Miller (J. Am. Medical Informatics Assoc., 1998)

Neuronal database integration: the Senselab EAV data model. - Luis N. Marenco; Prakash M. Nadkarni; Emmanouil Skoufos; Gordon M. Shepherd; Perry L. Miller (AMIA, 1999)

Application of Information Technology: Organization of Heterogeneous Scientific Data Using the EAV/CR Representation. - Prakash M. Nadkarni; Luis N. Marenco; Roland Chen; Emmanouil Skoufos; Gordon M. Shepherd; Perry L. Miller (J. Am. Medical Informatics Assoc., 1999)

Olfactory Receptor Database: a database of the largest eukaryotic gene family. - Emmanouil Skoufos; Matthew D. Healy; Michael S. Singer; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (Nucleic Acids Res., 1999)

The SenseLab Database: System Design Towards Interoperability. - Luis N. Marenco; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (AMIA, 2000)

Integration of a hematopoietic progenitor cell program using the ACT/DB database system. - Peter L. Perrotta; Prakash M. Nadkarni (Comput. Methods Programs Biomed., 2000)

Research Paper: Exploring Performance Issues for a Clinical Database Organized Using an Entity-Attribute-Value Representation. - Roland Chen; Prakash M. Nadkarni; Luis N. Marenco; Forrest W. Levin; Joseph Erdos; Perry L. Miller (J. Am. Medical Informatics Assoc., 2000)

Application of Information Technology: WebEAV: Automatic Metadata-driven Generation of Web Interfaces to Entity-Attribute-Value Databases. - Prakash M. Nadkarni; Cynthia Brandt; Luis N. Marenco (J. Am. Medical Informatics Assoc., 2000)

Research Paper: Exploring the Degree of Concordance of Coded and Textual Data in Answering Clinical Queries from a Clinical Data Repository. - H. David Stein; Prakash M. Nadkarni; Joseph Erdos; Perry L. Miller (J. Am. Medical Informatics Assoc., 2000)

Olfactory Receptor Database: a sensory chemoreceptor resource. - Emmanouil Skoufos; Luis N. Marenco; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (Nucleic Acids Res., 2000)

A Pilot Approach to Automated and Efficient Transfer of Neuroscience Data from Journal Articles to Searchable Databases. - Chiquito J. Crasto; Luis N. Marenco; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (AMIA, 2001)

Metadata-driven Ad Hoc Query of Clinical Studies Data. - Aniruddha M. Deshpande; Prakash M. Nadkarni (AMIA, 2001)

Generation of pedigree diagrams for web display using scalable vector graphics from a clinical trials database. - Sanjay K. Fernando; Cynthia Brandt; Prakash M. Nadkarni (AMIA, 2001)

Easing the transition between attribute-value databases and conventional databases for scientific data. - Prakash M. Nadkarni; Luis N. Marenco (AMIA, 2001)

Web-based UMLS concept retrieval by automatic text scanning: a comparison of two methods. - Cynthia Brandt; Prakash M. Nadkarni (Comput. Methods Programs Biomed., 2001)

Synthesis of Research: Integration of Multidisciplinary Sensory Data: A Pilot Model of the Human Brain Project Approach. - Perry L. Miller; Prakash M. Nadkarni; Michael S. Singer; Luis N. Marenco; Michael L. Hines; Gordon M. Shepherd (J. Am. Medical Informatics Assoc., 2001)

Research Paper: Use of General-purpose Negation Detection to Augment Concept Indexing of Medical Documents: A Quantitative Study Using the UMLS. - Pradeep Mutalik; Aniruddha M. Deshpande; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2001)

Research Paper: UMLS Concept Indexing for Production Databases: A Feasibility Study. - Prakash M. Nadkarni; Roland Chen; Cynthia Brandt (J. Am. Medical Informatics Assoc., 2001)

Metadata-driven creation of data marts from an EAV-modeled clinical research database. - Cynthia Brandt; Richard Morse; Keri Matthews; Kexin Sun; Aniruddha M. Deshpande; Rohit Gadagkar; Dorothy B. Cohen; Perry L. Miller; Prakash M. Nadkarni (Int. J. Medical Informatics, 2002)

Application of Information Technology: Metadata-driven Ad Hoc Query of Patient Data: Meeting the Needs of Clinical Studies. - Aniruddha M. Deshpande; Cynthia Brandt; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2002)

TrialDB: A Web-based Clinical Study Data Management System AMIA 2003 Open Source Expo. - Cynthia Brandt; Aniruddha M. Deshpande; Charles Lu 003; Gowri Ananth; Kexin Sun; Rohit Gadagkar; Richard Morse; Cesar Rodriguez; Perry L. Miller; Prakash M. Nadkarni (AMIA, 2003)

Creating Knowledgebases to Text-Mine PUBMED Articles Using Clustering Techniques. - Chiquito J. Crasto; Thomas M. Morse; Michele Migliore; Prakash M. Nadkarni; Michael L. Hines; Douglas E. Brash; Perry L. Miller; Gordon M. Shepherd (AMIA, 2003)

Temporal query of attribute-value patient data: utilizing the constraints of clinical studies. - Aniruddha M. Deshpande; Cynthia Brandt; Prakash M. Nadkarni (Int. J. Medical Informatics, 2003)

Model Formulation: Integrating Query of Relational and Textual Data in Clinical Databases: A Case Study. - John M. Fisk; Pradeep Mutalik; Forrest W. Levin; Joseph Erdos; Caroline Taylor; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2003)

Application of Information Technology: Achieving Evolvable Web-Database Bioscience Applications Using the EAV/CR Framework: Recent Advances. - Luis N. Marenco; Nicholas P. Tosches; Chiquito J. Crasto; Gordon M. Shepherd; Perry L. Miller; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2003)

Text mining neuroscience journal articles to populate neuroscience databases. - Chiquito J. Crasto; Luis N. Marenco; Michele Migliore; Buqing Mao; Prakash M. Nadkarni; Perry L. Miller; Gordon M. Shepherd (Neuroinformatics, 2003)

Evolving standards for clinical content in biomedicine: overview and lessons. - Prakash M. Nadkarni (Int. J. Serv. Stand., 2004)

Application of Information Technology: Managing Complex Change in Clinical Study Metadata. - Cynthia Brandt; Rohit Gadagkar; Cesar Rodriguez; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2004)

Model Formulation: QIS: A Framework for Biomedical Database Federation. - Luis N. Marenco; Tzuu-Yi Wang; Gordon M. Shepherd; Perry L. Miller; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2004)

Informatics Tools to Improve Clinical Research. - Stephanie Argraves; Cynthia Brandt; Roy Money; Prakash M. Nadkarni (AMIA, 2005)

Automating Identification of Adverse Events Related to Abnormal Lab Results Using Standard Vocabularies. - Cynthia Brandt; Charles Lu 003; Prakash M. Nadkarni (AMIA, 2005)

Metadata Driven Generation of Reports for Clinical Studies. - Kexin Sun; Prakash M. Nadkarni; Cynthia Brandt (AMIA, 2005)

VitaPad: visualization tools for the analysis of pathway data. - Matthew Holford; Naixin Li; Prakash M. Nadkarni; Hongyu Zhao 003 (Bioinform., 2005)

Metadata-driven Delphi rating on the Internet. - Aniruddha M. Deshpande; Richard N. Shiffman; Prakash M. Nadkarni (Comput. Methods Programs Biomed., 2005)

Pivoting approaches for bulk extraction of Entity-Attribute-Value data. - Valentin Dinu; Prakash M. Nadkarni; Cynthia Brandt (Comput. Methods Programs Biomed., 2006)

SenseLab: new developments in disseminating neuroscience information. - Chiquito J. Crasto; Luis N. Marenco; Nian Liu; Thomas M. Morse; Kei-Hoi Cheung; Peter C. Lai; Gautam Bahl; Peter Masiar; Hugo Y. K. Lam; Ernest Lim; Huajun Chen; Prakash M. Nadkarni; et al. (Briefings Bioinform., 2007)

Guidelines for the effective use of entity-attribute-value modeling for biomedical databases. - Valentin Dinu; Prakash M. Nadkarni (Int. J. Medical Informatics, 2007)

Service-oriented Architecture in Medical Software: Promises and Perils. - Prakash M. Nadkarni; Randolph A. Miller (J. Am. Medical Informatics Assoc., 2007)

Model Formulation: Automated Database Mediation Using Ontological Metadata Mappings. - Luis N. Marenco; Rixin Wang; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2009)

Drug safety surveillance using de-identified EMR and claims data: issues and challenges. - Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2010)

Migrating existing clinical content from ICD-9 to SNOMED. - Prakash M. Nadkarni; Jonathan A. Darer (J. Am. Medical Informatics Assoc., 2010)

Implementing description-logic rules for SNOMED-CT attributes through a table-driven approach. - Prakash M. Nadkarni; Luis N. Marenco (J. Am. Medical Informatics Assoc., 2010)

Determining correspondences between high-frequency MedDRA concepts and SNOMED: a case study. - Prakash M. Nadkarni; Jonathan D. Darer (BMC Medical Informatics Decis. Mak., 2010)

Interoperability and Integration Considerations for a Process-Oriented Clinical Decision Support System. - Hemant Shah; Ganesh Krishnan; Patricia Williams; Arthur Vogler; Raymond D. Allard; Prakash M. Nadkarni (SERVICES, 2011)

Overcoming barriers to NLP for clinical text: the role of shared tasks and the need for additional creative solutions. - Wendy Webber Chapman; Prakash M. Nadkarni; Lynette Hirschman; Leonard W. D'Avolio; Guergana K. Savova; Özlem Uzuner (J. Am. Medical Informatics Assoc., 2011)

Natural language processing: an introduction. - Prakash M. Nadkarni; Lucila Ohno-Machado; Wendy Webber Chapman (J. Am. Medical Informatics Assoc., 2011)

Data standards for clinical research data collection forms: current status and challenges. - Rachel L. Richesson; Prakash M. Nadkarni (J. Am. Medical Informatics Assoc., 2011)

Leveraging a clinical research information system to assist biospecimen data and workflow management: a hybrid approach. - Prakash M. Nadkarni; Rowena Kemp; Chirag Parikh (J. Clin. Bioinform., 2011)

Web-browser encryption of personal health information. - Richard Morse; Prakash M. Nadkarni; David A. Schoenfeld; Dianne M. Finkelstein (BMC Medical Informatics Decis. Mak., 2011)

An eUtils toolset and its use for creating a pipeline to link genomics and proteomics analyses to domain-specific biomedical literature. - Prakash M. Nadkarni; Chirag Parikh (J. Clin. Bioinform., 2012)

Requirements for guidelines systems: implementation challenges and lessons from existing software-engineering efforts. - Hemant Shah; Raymond D. Allard; Robert Enberg; Ganesh Krishnan; Patricia Williams; Prakash M. Nadkarni (BMC Medical Informatics Decis. Mak., 2012)

Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature. - Lucila Ohno-Machado; Prakash M. Nadkarni; Kevin B. Johnson (J. Am. Medical Informatics Assoc., 2013)

Brief communication: The Greater Plains Collaborative: a PCORnet Clinical Research Data Network. - Lemuel R. Waitman; Lauren S. Aaronson; Prakash M. Nadkarni; Daniel W. Connolly; James R. Campbell 001 (J. Am. Medical Informatics Assoc., 2014)