Indra Sarkar

Dr. Indra Sarkar

Center for Clinical and Translational Science, University of Vermont, 89 Beaumont Avenue, Given Courtyard N309, Burlington, VT 05405 USA

Research Focus & Metrics

Academic Career Length

21Years (2006-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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23 March 2011 in Briefings in Bioinformatics
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Journal Article
Open access
PDF file
ANAhmed Ragab Nabhan
Ahmed Ragab Nabhan
Indra SarkarIndra Sarkar
Indra Sarkar
Over the past two decades, there has been a long-standing debate about the impact of taxon sampling on phylogenetic inference. Studies have been based on both real and simulated data sets, within actual and theoretical contexts, and using different inference methods, to study the impact of taxon sampling. In some cases, conflicting conclusions have been drawn for the same data set. The main questions explored in studies to date have been about the effects of using sparse data, adding new taxa, including more characters from genome sequences and using different (or concatenated) locus regions. These questions can be reduced to more fundamental ones about the assessment of data quality and the design guidelines of taxon sampling in phylogenetic inference experiments. This review summarizes progress to date in understanding the impact of taxon sampling on the accuracy of phylogenetic analysis.

29 October 2008 in Molecular Ecology Resources
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Journal Article
Closed access
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Indra SarkarIndra Sarkar
Indra Sarkar
PPPaul J. Planet
Paul J. Planet
RDRob Desalle
Rob Desalle

1 April 2008 in Genomics
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Journal Article
Closed access
AGAntonio Garcia-españa
Antonio Garcia-españa
PCPei-Jung Chung
Pei-Jung Chung
Indra SarkarIndra Sarkar
Indra Sarkar
ESEric Stiner
Eric Stiner
TSTung-Tien Sun
Tung-Tien Sun
RDRob DeSalle
Rob DeSalle

15 May 2012 in Briefings in Bioinformatics
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Journal Article
Open access
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VSVivekanand Sharma
Vivekanand Sharma
Indra SarkarIndra Sarkar
Indra Sarkar
Plants have been used as a source of medicine since historic times and several commercially important drugs are of plant-based origin. The traditional approach towards discovery of plant-based drugs often times involves significant amount of time and expenditure. These labor-intensive approaches have struggled to keep pace with the rapid development of high-throughput technologies. In the era of high volume, high-throughput data generation across the biosciences, bioinformatics plays a crucial role. This has generally been the case in the context of drug designing and discovery. However, there has been limited attention to date to the potential application of bioinformatics approaches that can leverage plant-based knowledge. Here, we review bioinformatics studies that have contributed to medicinal plants research. In particular, we highlight areas in medicinal plant research where the application of bioinformatics methodologies may result in quicker and potentially cost-effective leads toward finding plant-based remedies.

26 February 2010 in Journal of Translational Medicine
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Journal Article
Open access
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Indra SarkarIndra Sarkar
Indra Sarkar
Biomedical informatics involves a core set of methodologies that can provide a foundation for crossing the "translational barriers" associated with translational medicine. To this end, the fundamental aspects of biomedical informatics (e.g., bioinformatics, imaging informatics, clinical informatics, and public health informatics) may be essential in helping improve the ability to bring basic research findings to the bedside, evaluate the efficacy of interventions across communities, and enable the assessment of the eventual impact of translational medicine innovations on health policies. Here, a brief description is provided for a selection of key biomedical informatics topics (Decision Support, Natural Language Processing, Standards, Information Retrieval, and Electronic Health Records) and their relevance to translational medicine. Based on contributions and advancements in each of these topic areas, the article proposes that biomedical informatics practitioners ("biomedical informaticians") can be essential members of translational medicine teams.

1 January 2013 in BMC Genomics
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Journal Article
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WTWilliam G Tharp
William G Tharp
Indra SarkarIndra Sarkar
Indra Sarkar
Amyloid-β plaques are a defining characteristic of Alzheimer Disease. However, Amyloid-β deposition is also found in other forms of dementia and in non-pathological contexts. Amyloid-β deposition is variable among vertebrate species and the evolutionary emergence of the amyloidogenic property is currently unknown. Evolutionary persistence of a pathological peptide sequence may depend on the functions of the precursor gene, conservation or mutation of nucleotides or peptide domains within the precursor gene, or a species-specific physiological environment.