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Prakash Nadkarni

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TOP 3
Prakash M Nadkarni; Chirag R Parikh
An eUtils toolset and its use for creating a pipeline to link genomics and proteomics analyses to domain-specific biomedical literature.
Prakash M Nadkarni; Lucila Ohno-Machado; Wendy W Chapman
Natural language processing: an introduction.
Prakash M Nadkarni; Rowena Kemp; Chirag R Parikh
Leveraging a clinical research information system to assist biospecimen data and workflow management: a hybrid approach.

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All Publications

2012: Prakash M Nadkarni; Chirag R Parikh
An eUtils toolset and its use for creating a pipeline to link genomics and proteomics analyses to domain-specific biomedical literature.
Journal of clinical bioinformatics 2012;2(1):9.
2011: Prakash M Nadkarni; Lucila Ohno-Machado; Wendy W Chapman
Natural language processing: an introduction.
Journal of the American Medical Informatics Association : JAMIA 2011;18(5):544-51.
2011: Prakash M Nadkarni; Rowena Kemp; Chirag R Parikh
Leveraging a clinical research information system to assist biospecimen data and workflow management: a hybrid approach.
Journal of clinical bioinformatics 2011;1():22.
2010: Prakash M Nadkarni; Jonathan Darer
Migrating existing clinical content from ICD-9 to SNOMED.
Journal of the American Medical Informatics Association : JAMIA 2010;17(5):602-7.
2009: Luis Marenco; Rixin Wang; Prakash M Nadkarni
Automated database mediation using ontological metadata mappings.
Journal of the American Medical Informatics Association : JAMIA 2009;16(5):723-37.
2007: valentin dinu; Prakash M Nadkarni
Guidelines for the effective use of entity-attribute-value modeling for biomedical databases.
International journal of medical informatics 2007;76(11-12):769-79.
2007: Chiquito J Crasto; Luis Marenco; Nian Liu; Thomas M Morse; Kei-Hoi Cheung; Peter C Lai; Gautam Bahl; Peter Masiar; Hugo Y K Lam; Ernest Lim; Huajin Chen; Prakash M Nadkarni; Michele Migliore; Perry L Miller; Gordon M Shepherd
SenseLab: new developments in disseminating neuroscience information.
Briefings in bioinformatics 2007;8(3):150-62.
2007: Prakash M Nadkarni; Luis Marenco
Database architectures for neuroscience applications.
Methods in molecular biology (Clifton, N.J.) 2007;401():37-52.
2007: Luis Marenco; Prakash M Nadkarni; Maryann Martone; Amarnath Gupta
Interoperability across neuroscience databases.
Methods in molecular biology (Clifton, N.J.) 2007;401():23-36.
2006: valentin dinu; Prakash M Nadkarni; Cynthia Brandt
Pivoting approaches for bulk extraction of Entity-Attribute-Value data.
Computer methods and programs in biomedicine 2006;82(1):38-43.
2006: Cynthia A Brandt; Stephanie Argraves; Roy Money; Gowri Ananth; Nina M Trocky; Prakash M Nadkarni
Informatics tools to improve clinical research study implementation.
Contemporary clinical trials 2006;27(2):112-22.
2006: Prakash M Nadkarni; Cynthia A Brandt
The Common Data Elements for cancer research: remarks on functions and structure.
Methods of information in medicine 2006;45(6):594-601.
2005: Prakash M Nadkarni; Mathieu Wiepert
Translating pharmacogenomics discoveries into clinical practice: the role of curated databases.
Pharmacogenomics 2005;6(5):451-4.
2005: Matthew Holford; Naixin Li; Prakash M Nadkarni; Hongyu Zhao
VitaPad: visualization tools for the analysis of pathway data.
Bioinformatics (Oxford, England) 2005;21(8):1596-602.
2005: Kexin Sun; Prakash M Nadkarni; Cynthia A Brandt
Metadata driven generation of reports for clinical studies.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2005;():1124.
2005: Cynthia A Brandt; C C Lu; Prakash M Nadkarni
Automating identification of adverse events related to abnormal lab results using standard vocabularies.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2005;():903.
2005: S Argraves; Cynthia A Brandt; Roy Money; Prakash M Nadkarni
Informatics tools to improve clinical research.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2005;():883.
2005: Aniruddha M Deshpande; Richard N Shiffman; Prakash M Nadkarni
Metadata-driven Delphi rating on the Internet.
Computer methods and programs in biomedicine 2005;77(1):49-56.
2004: Luis Marenco; Tzuu-Yi Wang; Gordon Shepherd; Perry L Miller; Prakash M Nadkarni
QIS: A framework for biomedical database federation.
Journal of the American Medical Informatics Association : JAMIA 2004;11(6):523-34.
2004: Cynthia A Brandt; Rohit Gadagkar; Cesar Rodriguez; Prakash M Nadkarni
Managing complex change in clinical study metadata.
Journal of the American Medical Informatics Association : JAMIA 2004;11(5):380-91.
2004: Cynthia A Brandt; K Sun; Peter Charpentier; Prakash M Nadkarni
Integration of Web-based and PC-based clinical research databases.
Methods of information in medicine 2004;43(3):287-95.
2004: Cynthia A Brandt; Dorothy B Cohen; Mark A Shifman; Perry L Miller; Prakash M Nadkarni; Sandra J Frawley
Approaches and informatics tools to assist in the integration of similar clinical research questionnaires.
Methods of information in medicine 2004;43(2):156-62.
2003: Luis Marenco; Nick Tosches; Chiquito J Crasto; Gordon Shepherd; Perry L Miller; Prakash M Nadkarni
Achieving evolvable Web-database bioscience applications using the EAV/CR framework: recent advances.
Journal of the American Medical Informatics Association : JAMIA 2003;10(5):444-53.
2003: Aniruddha M Deshpande; Cynthia Brandt; Prakash M Nadkarni
Temporal query of attribute-value patient data: utilizing the constraints of clinical studies.
International journal of medical informatics 2003;70(1):59-77.
2003: Chiquito J Crasto; Luis Marenco; Michele Migliore; Buqing Mao; Prakash M Nadkarni; Perry Miller; Gordon M Shepherd
Text mining neuroscience journal articles to populate neuroscience databases.
Neuroinformatics 2003;1(3):215-37.
2003: Chiquito J Crasto; Thomas M Morse; Michele Migliore; Prakash M Nadkarni; Michael Hines; Douglas E Brash; Perry L Miller; Gordon M Shepherd
Creating knowledgebases to text-mine PUBMED articles using clustering techniques.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2003;():821.
2003: Cynthia A Brandt; Aniruddha M Deshpande; C Lu; G Ananth; Kexin Sun; Rohit Gadagkar; R Morse; C Rodriguez; Perry L Miller; Prakash M Nadkarni
TrialDB: A web-based Clinical Study Data Management System.
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2003;():794.
2003: John M Fisk; Pradeep Mutalik; Forrest W Levin; Joseph Erdos; Caroline Taylor; Prakash M Nadkarni
Integrating query of relational and textual data in clinical databases: a case study.
Journal of the American Medical Informatics Association : JAMIA 2003;10(1):21-38.
2002: Cynthia A Brandt; Richard Morse; Keri Matthews; Kexin Sun; Aniruddha M Deshpande; Rohit Gadagkar; Dorothy B Cohen; Perry L Miller; Prakash M Nadkarni
Metadata-driven creation of data marts from an EAV-modeled clinical research database.
International journal of medical informatics 2002;65(3):225-41.
2002: Prakash M Nadkarni; Kexin Sun; Mathieu Wiepert
Designing and implementing special-purpose databases: lessons from the pharmacogenetic network.
Pharmacogenomics 2002;3(5):687-96.
2002: Aniruddha M Deshpande; Cynthia Brandt; Prakash M Nadkarni
Metadata-driven ad hoc query of patient data: meeting the needs of clinical studies.
Journal of the American Medical Informatics Association : JAMIA 2002;9(4):369-82.
2001: Pradeep Mutalik; A Deshpande; Prakash M Nadkarni
Use of general-purpose negation detection to augment concept indexing of medical documents: a quantitative study using the UMLS.
Journal of the American Medical Informatics Association : JAMIA 2001;8(6):598-609.
2001: Prakash M Nadkarni; Luis Marenco
Easing the transition between attribute-value databases and conventional databases for scientific data.
Proceedings / AMIA ... Annual Symposium. AMIA Symposium 2001;():483-7.
2001: S K Fernando; C Brandt; Prakash M Nadkarni
Generation of pedigree diagrams for web display using scalable vector graphics from a clinical trials database.
Proceedings / AMIA ... Annual Symposium. AMIA Symposium 2001;():174-8.
2001: Prakash M Nadkarni; R Chen; Cynthia Brandt
UMLS concept indexing for production databases: a feasibility study.
Journal of the American Medical Informatics Association : JAMIA 2001;8(1):80-91.
2001: Perry L Miller; Prakash M Nadkarni; M Singer; Luis Marenco; M Hines; Gordon Shepherd
Integration of multidisciplinary sensory data: a pilot model of the human brain project approach.
Journal of the American Medical Informatics Association : JAMIA 2001;8(1):34-48.
2000: Cynthia A Brandt; Prakash M Nadkarni; Luis Marenco; BT Karras; C Lu; L Schacter; J M Fisk; Perry L Miller
Reengineering a database for clinical trials management: lessons for system architects.
Controlled clinical trials 2000;21(5):440-61.
2000: R S Chen; Prakash M Nadkarni; Luis Marenco; F Levin; Joseph Erdos; Perry L Miller
Exploring performance issues for a clinical database organized using an entity-attribute-value representation.
Journal of the American Medical Informatics Association : JAMIA 2000;7(5):475-87.
2000: Prakash M Nadkarni
Clinical patient record systems architecture: an overview.
Journal of postgraduate medicine 2000;46(3):199-204.
2000: Perry L Miller; C Brandt; K Cheung; Mark E Mattie; Prakash M Nadkarni; Richard N Shiffman
The Yale Center for Medical Informatics: clinical, neuro- and genomic informatics.
M.D. computing : computers in medical practice 2000;17(4):29-32.
2000: Prakash M Nadkarni; C M Brandt; Luis Marenco
WebEAV: automatic metadata-driven generation of web interfaces to entity-attribute-value databases.
Journal of the American Medical Informatics Association : JAMIA 2000;7(4):343-56.
2000: R S Chen; Prakash M Nadkarni; F L Levin; Perry L Miller; Joseph Erdos; Robert A Rosenheck
Using a computer database to monitor compliance with pharmacotherapeutic guidelines for schizophrenia.
Psychiatric services (Washington, D.C.) 2000;51(6):791-4.
2000: Prakash M Nadkarni
Information retrieval in medicine: overview and applications.
Journal of postgraduate medicine 2000;46(2):116-22.
2000: H D Stein; Prakash M Nadkarni; Joseph Erdos; Perry L Miller
Exploring the degree of concordance of coded and textual data in answering clinical queries from a clinical data repository.
Journal of the American Medical Informatics Association : JAMIA 2000;7(1):42-54.
2000: E Skoufos; Luis Marenco; Prakash M Nadkarni; Perry L Miller; Gordon M Shepherd
Olfactory receptor database: a sensory chemoreceptor resource.
Nucleic acids research 2000;28(1):341-3.
1999: Prakash M Nadkarni; Luis Marenco; R Chen; E Skoufos; Gordon Shepherd; Perry Miller
Organization of heterogeneous scientific data using the EAV/CR representation.
Journal of the American Medical Informatics Association : JAMIA 1999;6(6):478-93.
1999: Luis Marenco; Prakash M Nadkarni; E Skoufos; Gordon Shepherd; Perry Miller
Neuronal database integration: the Senselab EAV data model.
Proceedings / AMIA ... Annual Symposium. AMIA Symposium 1999;():102-6.
1999: E Skoufos; MD Healy; Michael S Singer; Prakash M Nadkarni; Perry L Miller; Gordon M Shepherd
Olfactory Receptor Database: a database of the largest eukaryotic gene family.
Nucleic acids research 1999;27(1):343-5.
1998: Prakash M Nadkarni
CHRONOMERGE: an application for the merging and display of multiple time-stamped data streams.
Computers and biomedical research, an international journal 1998;31(6):451-64.
1998: Gordon M Shepherd; J S Mirsky; MD Healy; Michael S Singer; E Skoufos; M S Hines; Prakash M Nadkarni; Perry L Miller
The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data.
Trends in neurosciences 1998;21(11):460-8.
1998: Prakash M Nadkarni; Cynthia Brandt
Data extraction and ad hoc query of an entity-attribute-value database.
Journal of the American Medical Informatics Association : JAMIA 1998;5(6):511-27.
1998: J S Mirsky; Prakash M Nadkarni; MD Healy; Perry L Miller; Gordon M Shepherd
Database tools for integrating and searching membrane property data correlated with neuronal morphology.
Journal of neuroscience methods 1998;82(1):105-21.
1998: Prakash M Nadkarni; Cynthia Brandt; Sandra J Frawley; Fred Sayward; R Einbinder; Daniel Zelterman; L Schacter; Perry L Miller
Managing attribute--value clinical trials data using the ACT/DB client-server database system.
Journal of the American Medical Informatics Association : JAMIA 1998;5(2):139-51.
1998: Kei-Hoi Cheung; Prakash M Nadkarni; P Miller; Dong-guk Shin
Automatic query mapping among genomic databases: a pilot exploration.
Proceedings / AMIA ... Annual Symposium. AMIA Symposium 1998;():942-6.
1998: Kei-Hoi Cheung; Prakash M Nadkarni; Dong-guk Shin
A metadata approach to query interoperation between molecular biology databases.
Bioinformatics (Oxford, England) 1998;14(6):486-97.
1998: Prakash M Nadkarni
Mapmerge: merge genomic maps.
Bioinformatics (Oxford, England) 1998;14(4):310-6.
1997: Prakash M Nadkarni
Concept locator: a client-server application for retrieval of UMLS metathesaurus concepts through complex boolean query.
Computers and biomedical research, an international journal 1997;30(4):323-36.
1997: MD Healy; J E Smith; Michael S Singer; Prakash M Nadkarni; E Skoufos; Perry L Miller; Gordon M Shepherd
Olfactory receptor database (ORDB): a resource for sharing and analyzing published and unpublished data.
Chemical senses 1997;22(3):321-6.
1997: Prakash M Nadkarni
QAV: querying entity-attribute-value metadata in a biomedical database.
Computer methods and programs in biomedicine 1997;53(2):93-103.
1997: Prakash M Nadkarni
Mapdiff: determining differences between two genomic maps.
Computer applications in the biosciences : CABIOS 1997;13(3):217-25.
1996: B E Peterson; MD Healy; Prakash M Nadkarni; Perry L Miller; Gordon M Shepherd
ModelDB: an environment for running and storing computational models and their results applied to neuroscience.
Journal of the American Medical Informatics Association : JAMIA 1996;3(6):389-98.
1996: Kei-Hoi Cheung; Prakash M Nadkarni; S Silverstein; J R Kidd; Andrew J Pakstis; Perry Miller; Kenneth K Kidd
PhenoDB: an integrated client/server database for linkage and population genetics.
Computers and biomedical research, an international journal 1996;29(4):327-37.
1996: Prakash M Nadkarni; A Banks; K Montgomery; J LeBlanc-Stracewski; P Miller; K Krauter
CONTIG EXPLORER: interactive marker-content map assembly.
Genomics 1996;31(3):301-10.
1996: Prakash M Nadkarni; Kei-Hoi Cheung; C Castiglione; Perry Miller; Kenneth K Kidd
DNA workbench: a database package to manage regional physical mapping.
Journal of computational biology : a journal of computational molecular cell biology 1996;3(2):319-29.
1995: Prakash M Nadkarni
Management of evolving map data: data structures and algorithms based on the framework map.
Genomics 1995;30(3):565-73.
1995: Prakash M Nadkarni; Kei-Hoi Cheung
SQLGEN: a framework for rapid client-server database application development.
Computers and biomedical research, an international journal 1995;28(6):479-99.
1995: Perry L Miller; Prakash M Nadkarni; Kenneth K Kidd; K Cheung; David C Ward; A Banks; Patricia Bray-Ward; L Cupelli; V Herdman; I Marondel; K Montgomery; B Renault; S J Yoon; K S Krauter; Raju Kucherlapati
Internet-based support for bioscience research: a collaborative genome center for human chromosome 12.
Journal of the American Medical Informatics Association : JAMIA 1995;2(6):351-64.
1995: Perry L Miller; Prakash M Nadkarni; R Kucherlapati; K S Krauter; K K Kidd; D C Ward; Gordon M Shepherd; D Berkowicz
Network-based informatics support of research collaborations in the Human Genome Project and the Human Brain Project.
Medinfo. MEDINFO 1995;8 Pt 2():1541-4.
1995: Prakash M Nadkarni; Patricia Bray-Ward
CEPH viewer: a client-server database to browse and manipulate CEPH physical mapping and linkage data.
Genomics 1995;25(1):318-20.
1994: Prakash M Nadkarni; S T Reeders; J Zhou
A modification of the ALIGN program to assist visual interpretation of mutated sequences.
Computer applications in the biosciences : CABIOS 1994;10(3):361-2.
1994: Prakash M Nadkarni
GDBDICT: a program to extract GDB schema information into a relational database.
Genomics 1994;19(1):185-6.
1992: Perry L Miller; Prakash M Nadkarni; W R Pearson
Comparing machine-independent versus machine-specific parallelization of a software platform for biological sequence comparison.
Computer applications in the biosciences : CABIOS 1992;8(2):167-75.
1992: Perry L Miller; Prakash M Nadkarni; P A Bercovitz
Harnessing networked workstations as a powerful parallel computer: a general paradigm illustrated using three programs for genetic linkage analysis.
Computer applications in the biosciences : CABIOS 1992;8(2):141-7.
1991: Perry L Miller; Prakash M Nadkarni; Joel Gelernter; N Carriero; Andrew J Pakstis; Kenneth K Kidd
Parallelizing genetic linkage analysis: a case study for applying parallel computation in molecular biology.
Computers and biomedical research, an international journal 1991;24(3):234-48.
1991: Perry L Miller; Prakash M Nadkarni; N M Carriero
Parallel computation and FASTA: confronting the problem of parallel database search for a fast sequence comparison algorithm.
Computer applications in the biosciences : CABIOS 1991;7(1):71-8.