Maulik Kamdar

• Doctor of Philosophy
• Director of Clinical Informatics at Optum Health

Background: Fibroproliferative or fibrotic diseases (FDs), which represent a significant proportion of age-related pathologies and account for over 40% of mortality in developed nations, are often underrepresented in focused research. Typically, these conditions are studied individually, such as chronic obstructive pulmonary disease or idiopathic p...

BACKGROUND Fibroproliferative/fibrotic diseases (FD) are one of the most frequent age-related diseases, responsible for more than 40% mortality in developed countries. Despite these diseases’ importance, insufficient attention is given to FD. FD are rarely addressed as a group of diseases; rather the emphasis is often placed on particular diseases...

Background Fibroproliferative or fibrotic diseases (FDs), which represent a significant proportion of age-related pathologies and account for over 40% of mortality in developed nations, are often underrepresented in focused research. Typically, these conditions are studied individually, such as chronic obstructive pulmonary disease or idiopathic pu...

Knowledge graphs are developed and used in academia and industry to tackle complex challenges in healthcare and biomedical research. Elsevier's Healthcare Knowledge Graph (HG) is developed by extracting and integrating medical knowledge from several heterogeneous sources such as clinical guidelines, medical textbooks, and legacy databases. The HG p...

Objective Although social and environmental factors are central to provider–patient interactions, the data that reflect these factors can be incomplete, vague, and subjective. We sought to create a conceptual framework to describe and classify data about presence, the domain of interpersonal connection in medicine. Methods Our top-down approach fo...

Objective Although social and environmental factors are central to provider patient interactions, the data that reflect these factors can be incomplete, vague, and subjective. We sought to create a conceptual framework to describe and classify data about presence, the domain of interpersonal connection in medicine. Methods Our top down approach for...

While the biomedical community has published several “open data” sources in the last decade, most researchers still endure severe logistical and technical challenges to discover, query, and integrate heterogeneous data and knowledge from multiple sources. To tackle these challenges, the community has experimented with Semantic Web and linked data t...

Clinicians face several significant barriers to search and synthesize accurate, succinct, updated, and trustworthy medical information from several literature sources during the practice of medicine and patient care. In this talk, we will be presenting our research behind the development of a Focused Clinical Search Service, powered by a Healthcare...

While the biomedical community has published several "open data" sources in the last decade, most researchers still endure severe logistical and technical challenges to discover, query, and integrate heterogeneous data and knowledge from multiple sources. To tackle these challenges, the community has experimented with Semantic Web and linked data t...

Knowledge graphs have been shown to significantly improve search results. Usually populated by subject matter experts, relations therein need to keep up to date with medical literature in order for search to remain relevant. Dynamically identifying text snippets in literature that confirm or deny knowledge graph triples is increasingly becoming the...

Linked Open Data promises to provide guiding principles to publish interlinked knowledge graphs on the Web in the form of findable, accessible, interoperable, and reusable datasets. We argue that while as such, Linked Data may be viewed as a basis for instantiating the FAIR principles, there are still a number of open issues that cause significant...

Knowledge graphs have been shown to significantly improve search results. Usually populated by subject matter experts, relations therein need to keep up to date with medical literature in order for search to remain relevant. Dynamically identifying text snippets in literature that confirm or deny knowledge graph triples is increasingly becoming the...

In this deliberately provocative position paper, we claim that more than ten years into Linked Data there are still (too?) many unresolved challenges towards arriving at a truly machine-readable and decentralized Web of data. We take a deeper look at key challenges in usage and adoption of Linked Data from the ever-present "LOD cloud" diagram. Here...

The biomedical data landscape is fragmented with several isolated, heterogeneous data and knowledge sources, which use varying formats, syntaxes, schemas, and entity notations, existing on the Web. Biomedical researchers face severe logistical and technical challenges to query, integrate, analyze, and visualize data from multiple diverse sources in...

The United States is in the midst of an opioid epidemic with recent estimates indicating that more than 130 people die every day due to drug overdose. The over-prescription and addiction to opioid painkillers, heroin, and synthetic opioids, has led to a public health crisis and created a huge social and economic burden. Statistical learning methods...

The metadata about scientific experiments published in online repositories have been shown to suffer from a high degree of representational heterogeneity—there are often many ways to represent the same type of information, such as a geographical location via its latitude and longitude. To harness the potential that metadata have for discovering sci...

The metadata about scientific experiments published in online repositories have been shown to suffer from a high degree of representational heterogeneity---there are often many ways to represent the same type of information, such as a geographical location via its latitude and longitude. To harness the potential that metadata have for discovering s...

The vision of the Semantic Web has stimulated the development of Web-scale architectures for discovering implicit associations from multiple heterogeneous data and knowledge sources. In biomedicine, using W3C-established standards and Linked Data principles, data publishers have transformed and linked several datasets to create a huge web of Life S...

Adverse drug reactions (ADR) result in significant morbidity and mortality in patients, and a substantial proportion of these ADRs are caused by drug-drug interactions (DDIs). Pharmacovigilance methods are used to detect unanticipated DDIs and ADRs by mining Spontaneous Reporting Systems, such as the US FDA Adverse Event Reporting System (FAERS). H...

Glioblastoma Multiforme (GBM), a malignant brain tumor, is among the most lethal of all cancers. Temozolomide is the primary chemotherapy treatment for patients diagnosed with GBM. The methylation status of the promoter or the enhancer regions of the O6-methylguanine methyltransferase (MGMT) gene may impact the efficacy and sensitivity of temozolom...

Biomedical ontologies are large: Several ontologies in the BioPortal repository contain thousands or even hundreds of thousands of entities. The development and maintenance of such large ontologies is difficult. To support ontology authors and repository developers in their work, it is crucial to improve our understanding of how these ontologies ar...

Adverse drug reactions (ADR) result in significant morbidity and mortality in patients, and a substantial proportion of these ADRs are caused by drug-drug interactions (DDIs). Pharmacovigilance methods are used to detect unan-ticipated DDIs and ADRs by mining Spontaneous Reporting Systems, such as the US FDA Adverse Event Reporting System (FAERS)....

BiOnIC is a catalog of aggregated statistics of user clicks, queries, and reuse counts for access to over 200 biomedical ontologies. BiOnIC also provides anonymized sequences of classes accessed by users over a period of four years. To generate the statistics, we processed the access logs of BioPortal, a large open biomedical ontology repository. W...

Integrated approaches for pharmacology are required for the mechanism-based predictions of adverse drug reactions that manifest due to concomitant intake of multiple drugs. These approaches require the integration and analysis of biomedi-cal data and knowledge from multiple, heterogeneous sources with varying schemas, entity notations, and formats....

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 and to reduce engineering costs. In this paper, we present a descriptive study of the current extent of term reuse and overlap among biomedical ont...

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 by the fact that the information physicians use to diagnose these disorders is episodic and often subjective. Current methods to monitor mental health involve the...

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 by the fact that the information physicians use to diagnose these disorders is episodic and often subjective. Current methods to monitor mental health involve the...

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 constructs: (a) explicit term reuse, (b) xref reuse, and (c) Concept Unique Identifier (CUI) reuse. While there is a term label similarity of approxi...

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 constructs: (a) explicit term reuse, (b) xref reuse, and (c) Concept Unique Identifier (CUI) reuse. While there is a term label similarity of approxi...

Ebola virus (EBOV), of the family Filoviridae viruses, is a NIAID category A, lethal human pathogen. It is responsible for causing Ebola virus disease (EVD) that is a severe hemorrhagic fever and has a cumulative death rate of 41% in the ongoing epidemic in West Africa. There is an ever-increasing need to consolidate and make available all the know...

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 is crucial for personalized medicine and the improvement of drug discovery process. However, navigating these multiple datasets is not trivial...

Understanding the dynamics of protein-protein interactions (PPIs) is a cardinal step for studying human diseases at the molecular level. Advances in " sequencing " technologies have resulted in a deluge of biological data related to gene and protein expression, yet our knowledge of PPI networks is far from complete. The lack of an integrated vocabu...

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 in-formation discovery. As an integral part of the EU GRANATUM project, a Linked Biomedical Dataspace (LBDS) was developed to semantically interlink data f...

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 discovery. As an integral part of the EU GRANATUM project, a Linked Biomedical Dataspace (LBDS) was developed to semantically interlink data fr...

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 changes and the variety of formats in which bio-medical data is published makes it difficult to access them in an integrated form. Finally, the lack of...

Cancer genomics research has greatly benefitted from high-throughput technologies for the characterization of genomic alterations in patients. These voluminous genomics datasets when supplemented with the appropriate computational tools have led towards the identification of 'oncogenes' and cancer pathways. However, if a researcher wishes to exploi...

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 proteome), participating in 6744 reactions based on data extracted from 15 107 research publications with PubMed links. The Reactome Web site and an...

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 the variety of formats in which bio-medical is published makes it difficult to access them in an integrated form. Moreover, the lack of...

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 datasets available through standardized interfaces, has created opportunities towards new methods in biomedical discovery. Despite the po...

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 human pathogenic fungus was found to be 32 µg/mL that unaffected the human red blood cells. The antifungal activity associated with exAFP-C...