Resume

Resume

  Selected Publications

Systematic Analysis
A Systematic Analysis of Term Reuse and Term Overlap across Biomedical Ontologies

Maulik R. Kamdar, Tania Tudorache and Mark Musen

Semantic Web – Interoperability, Usability, Applicability (accepted - in press)

Reusing ontologies and their terms is a principle and best practice that most ontology development methodologies strongly encourage. Reuse comes with the promise to support the semantic interoperability ... Read More

 Article  |   Slides  |   Code  |   Poster  |   Data  |   Visualization  | BEST POSTER AWARD

PRISM
PRISM: A Data-driven Platform for Monitoring Mental Health

Maulik R. Kamdar and Michelle Wu

21st Pacific Symposium on Biocomputing, Big Island of Hawaii, January 2016

Neuropsychiatric disorders are the leading cause of disability worldwide and there is no gold standard currently available for the measurement of mental health. This issue is exacerbated ... Read More

 Download  |   Slides  |   Code  |   Application  |   Pubmed  |   Video  | NIH/NLM TRAVEL AWARD

Ebola-KB
An Ebola Virus-centered Knowledge Base

Maulik R. Kamdar and Michel Dumontier

Database: The Journal of Biological Databases and Curation, April 2015

Ebola Virus (EBOV), of the family Filoviridae viruses, is a NIAID category A, lethal human pathogen. It is responsible for causing the Ebola Virus Disease (EVD) that is a severe hemorrhagic fever ... Read More

 Article  |   Code  |   Pubmed  |   Poster  |   Data  |   Visualization

TermReuse
Investigating Term Reuse and Overlap in Biomedical Ontologies

Maulik R. Kamdar, Tania Tudorache and Mark Musen

6th International Conference on Biomedical Ontology, Lisbon, July 2015

We investigate the current extent of term reuse and overlap among biomedical ontologies. We use the corpus of biomedical ontologies stored in the BioPortal repository, and analyze three types of reuse ... Read More

 Download  |   Slides  |   Poster  |   Data  |   Code  |   Visualization  | BEST POSTER AWARD

GenomeSnip
GenomeSnip: Fragmenting the Genomic Wheel to augment discovery in cancer research

Maulik R. Kamdar, Aftab Iqbal, Muhammad Saleem, Helena F. Deus and Stefan Decker

7th Conference on Semantics in Healthcare and Life Sciences, Boston, February 2014

Cancer genomics researchers have greatly benefited from high-throughput technologies for the characterization of genomic alterations in patients. These voluminous genomics datasets when supplemented with ... Read More

 Download  |   Slides  |   Code  |   Demo  | BEST PAPER AWARD

ReVeaLD
ReVeaLD: A user-driven domain-specific interactive search platform for biomedical research

Maulik R. Kamdar, Dimitris Zeginis, Ali Hasnain, Stefan Decker and Helena F. Deus

Journal of Biomedical Informatics, February 2014

Bioinformatics research relies heavily on the ability to discover and correlate data from various sources. The specialization of life sciences over the past decade, coupled with an increasing number of biomedical ... Read More

 Article  |   Slides  |   Code  |   Pubmed  |   Poster  |   Video  |   Demo  | BEST POSTER AWARD

  Journal Publications (Other)

Big Linked Cancer Data
Big Linked Cancer Data: Integrating Linked TCGA and PubMed

Muhammad Saleem, Maulik R. Kamdar, Aftab Iqbal, Shanmukha Sampath, Helena F. Deus and Axel-Cyrille Ngonga

Web Semantics: Science, Services and Agents on the World Wide Web, October 2014

The amount of bio-medical data available on the Web grows exponentially with time. The resulting large volume of data makes manual exploration very tedious. Moreover, the velocity at which this data ... Read More

 Article  |   Code  |   Demo

DGAT2 Isozyme
Functional characterization of two structurally novel diacylglycerol acyltransferase2 isozymes responsible for the enhanced production of stearate-rich storage lipid in Candida tropicalis SY005

Prabuddha Dey, Monami Chakraborty, Maulik R. Kamdar and Mrinal K. Maiti

PLOS ONE, April 2014

Diacylglycerol acyltransferase (DGAT) activity is an essential enzymatic step in the formation of neutral lipid i.e., triacylglycerol in all living cells capable of accumulating storage lipid. Previously, we characterized ... Read More

 Article  |   Pubmed

Reactome
The Reactome pathway knowledgebase

David Croft, Antonio F. Mundo, Robin Haw, Marija Milacic, Joel Weiser, Guanming Wu, Michael Caudy, Phani Garapati, Marc Gillespie,

Maulik R. Kamdar, Bijay Jassal, Steven Jupe, Lisa Matthews, Bruce May, Stanislav Palatnik, Karen Rothfels, Veronica Shamovsky, et al.

Nucleic Acids Research (Database Issue), January 2014

Reactome (http://www.reactome.org) is a manually curated open-source open-data resource of human pathways and reactions. The current version 46 describes 7088 human proteins (34% of the predicted human ... Read More

 Article  |   Pubmed  |   Demo

exAFP-C28 Protein
Identification of an extracellular antifungal protein from the endophytic fungus Colletotrichum sp. DM06

Prabuddha Dey, Maulik R. Kamdar, Santi M. Mandal and Mrinal K. Maiti

Protein and Peptide Letters, February 2013

An extracellular antifungal protein of 28 kDa (exAFP-C28) was identified from an endophytic fungus Colletotrichum sp. DM-06. After purification, the MIC value of exAFP-C28 against Candida albicans, a well-known ... Read More

 Article  |   Slides  |   Pubmed

  Conference Presentations (Other)

LSLODRoadmap
A Roadmap for Navigating the Life Sciences Linked Open Data Cloud

Ali Hasnain, Syeda Sana e Zainab, Maulik R. Kamdar, Qaiser Mehmood, Claude N. Warren, Jr, Qurratal Ain Fatimah, Helena F. Deus, et al.

4th Joint International Semantic Technology Conference, Chiang Mai, November 2014

Multiple datasets that add high value to biomedical research have been exposed on the web as a part of the Life Sciences Linked Open Data (LSLOD) Cloud. The ability to easily navigate through these datasets ... Read More

 Download  |   Website  |   Visualization

LinkedPPI
LinkedPPI: Enabling Intuitive, Integrative Protein-Protein Interaction Discovery

Laleh Kazemzadeh, Maulik R. Kamdar, Oya D. Beyan, Stefan Decker and Frank Barry

4th Workshop on Linked Science at the 13th International Semantic Web Conference, Riva Del Garda, October 2014

Understanding the dynamics of protein-protein interactions(PPIs) is a cardinal step for studying human diseases at the molecular level. Advances in "-omics" technologies has resulted in a deluge of biological data ... Read More

 Download  |   Demo

Linked Biomedical Dataspace
Linked Biomedical Dataspace: Lessons Learned integrating Data for Drug Discovery

Ali Hasnain, Maulik R. Kamdar, Panagiotis Hasapis, Dimitris Zeginis, Claude N. Warren, Jr., Helena F. Deus, Dimitrios Ntalaperas, et al.

13th International Semantic Web Conference (In-use Track), Riva Del Garda, October 2014

The increase in the volume and heterogeneity of biomedical data sources has motivated researchers to embrace Linked Data (LD) technologies to solve the ensuing integration challenges and enhance information ... Read More

 Download  |   Demo

LinkedTCGA Dashboard v1
Fostering Serendipity through Big Linked Data

Muhammad Saleem, Maulik R. Kamdar, Aftab Iqbal, Shanmukha Sampath, Helena F. Deus and Axel-Cyrille Ngonga

Semantic Web Challenge in the 12th International Semantic Web Conference, Sydney, October 2013

The amount of bio-medical data available over the Web grows exponentially with time. The large volume of the currently available data makes it difficult to explore, while the velocity at which this data changes and ... Read More

 Download  |   Slides  |   Code  |   Poster  |   Demo  | BIG DATA PRIZE |   WALL STREET JOURNAL

  Book Chapters

Open Data Ireland: Data Audit Report

Richard Cyganiak, Maulik Kamdar, Fadi Maali, Deirdre Lee and Stefan Decker

Open Data Ireland Support Project, 2014

 Download  |   Launch Article

  Posters

BMI Retreat 2015
Extracting Similar Flavors in the Spaghetti of Biomedical Ontologies

Maulik R. Kamdar, Tania Tudorache and Mark Musen

BMI Retreat, September 2015

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CS 224W
Predicting Transcription Factor Complexes Using Similarities in Genomic Motifs

Lichy Han, Maulik Kamdar and Daniel Kim

CS 224W Poster Presentation, December 2015

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BMI210 Poster
Bioinformatics Search

Lichy Han, Winn Haynes, Maulik Kamdar and Alejandro Schuler

BMI 210 Poster Presentation, March 2015

Big Data in Biomedicine Conference, May 2015

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Ebola Poster
An Ebola-centered Knowledge Base

Maulik R. Kamdar and Michel Dumontier

Bio-X Interdisciplinary Initiatives Seed Grant Symposium, February 2015

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CS229 Poster
Visualizing Personalized Cancer Risk Prediction

Maulik R. Kamdar

CS 229 Poster Presentation, December 2014

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Reveald Poster
ReVeaLD: A user-driven domain-specific interactive search platform for biomedical research

Maulik R. Kamdar, Dimitris Zeginis, Ali Hasnain, Stefan Decker and Helena F. Deus

10th Summer School on Ontology Engineering and the Semantic Web,
Cercedilla, July 2013

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