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Thiruvarangan Ramaraj · SciRah

Researcher profile · Semantic Scholar

Thiruvarangan Ramaraj

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Thiruvarangan Ramaraj — researcher profile on SciRah

h-index: 22
Works: 79
Citations: 2,408

Most-cited papers

Genome, epigenome and RNA sequences of monozygotic twins discordant for multiple sclerosis
S. Baranzini, J. Mudge, J. V. van Velkinburgh, P. Khankhanian +25 more
2010Nature487 citations Open access
Semantic Scholar
Composition, Diversity and Abundance of Gut Microbiome in Prediabetes and Type 2 Diabetes
Stacey M Lambeth, Trechelle Carson, J. Lowe, Thiruvarangan Ramaraj +4 more
2015Journal of Diabetes and Obesity272 citations Open access
Semantic Scholar
Antigen–antibody interface properties: Composition, residue interactions, and features of 53 non-redundant structures
Thiruvarangan Ramaraj, Thomas E. Angel, E. Dratz, A. Jesaitis +1 more
2012Biochimica et Biophysica Acta196 citations Open access
Semantic Scholar
Single-molecule sequencing and Hi-C-based proximity-guided assembly of amaranth (Amaranthus hypochondriacus) chromosomes provide insights into genome evolution
Damien J. Lightfoot, D. Jarvis, Thiruvarangan Ramaraj, R. Lee +2 more
2017BMC Biology128 citations Open access
Semantic Scholar
The Amaranth Genome: Genome, Transcriptome, and Physical Map Assembly
J. Clouse, D. Adhikary, Justin T. Page, Thiruvarangan Ramaraj +5 more
2016The Plant Genome123 citations Open access
Semantic Scholar
Genome and secretome analysis of the hemibiotrophic fungal pathogen, Moniliophthora roreri, which causes frosty pod rot disease of cacao: mechanisms of the biotrophic and necrotrophic phases
L. Meinhardt, Gustavo G. L. Costa, D. Thomazella, P. Teixeira +13 more
2014BMC Genomics105 citations Open access
Semantic Scholar
Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes
Peng Zhou, K. Silverstein, Thiruvarangan Ramaraj, J. Guhlin +9 more
2017BMC Genomics92 citations Open access
Semantic Scholar
Genome and evolution of the arbuscular mycorrhizal fungus Diversispora epigaea (formerly Glomus versiforme) and its bacterial endosymbionts.
Xue-Peng Sun, Wenbo Chen, S. Ivanov, A. MacLean +5 more
2018New Phytologist91 citations Open access
Semantic Scholar
De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri
J. Udall, Evan M Long, C. Hanson, D. Yuan +7 more
2019G3: Genes, Genomes, Genetics86 citations Open access
Semantic Scholar
Hybrid assembly with long and short reads improves discovery of gene family expansions
J. Miller, Peng Zhou, J. Mudge, James Gurtowski +15 more
2017BMC Genomics60 citations Open access
Semantic Scholar
Novel Meiotic miRNAs and Indications for a Role of PhasiRNAs in Meiosis
Stefanie Dukowic-Schulze, A. Sundararajan, Thiruvarangan Ramaraj, S. Kianian +3 more
2016Frontiers in Plant Science59 citations Open access
Semantic Scholar
The transcriptome landscape of early maize meiosis
Stefanie Dukowic-Schulze, A. Sundararajan, J. Mudge, Thiruvarangan Ramaraj +8 more
2014BMC Plant Biology52 citations Open access
Semantic Scholar
Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula
Karen M. Moll, Peng Zhou, Thiruvarangan Ramaraj, Diego A. Fajardo +8 more
2017BMC Genomics50 citations Open access
Semantic Scholar
Use of a draft genome of coffee (Coffea arabica) to identify SNPs associated with caffeine content
Hue T. M. Tran, Thiruvarangan Ramaraj, A. Furtado, L. Lee +1 more
2018Plant Biotechnology Journal47 citations Open access
Semantic Scholar
Crude oil impairs immune function and increases susceptibility to pathogenic bacteria in southern flounder
K. Bayha, Natalie Ortell, Caitlin N. Ryan, K. J. Griffitt +7 more
2017PLoS ONE46 citations Open access
Semantic Scholar
Comparative genomic analysis of two Burkholderia glumae strains from different geographic origins reveals a high degree of plasticity in genome structure associated with genomic islands
Felix Francis, Joo-Hyeng Kim, Thiruvarangan Ramaraj, A. Farmer +2 more
2013Zeitschrift für Induktive Abstammungs- und Vererbungslehre42 citations
Semantic Scholar
The complete chloroplast genome sequences for four Amaranthus species (Amaranthaceae)1
L. Chaney, Ryan Mangelson, Thiruvarangan Ramaraj, E. Jellen +1 more
2016Applications in Plant Sciences40 citations Open access
Semantic Scholar
The Genome Sequence of Gossypioides kirkii Illustrates a Descending Dysploidy in Plants
J. Udall, Evan M Long, Thiruvarangan Ramaraj, Justin L. Conover +7 more
2019Frontiers in Plant Science37 citations Open access
Semantic Scholar
Salt and oxidative stresses uniquely regulate tomato cytokinin levels and transcriptomic response
Erika A. Keshishian, H. Tucker Hallmark, Thiruvarangan Ramaraj, Lenka Plačková +4 more
2018Plant Direct34 citations Open access
Semantic Scholar
Histone Citrullination Represses MicroRNA Expression, Resulting in Increased Oncogene mRNAs in Somatolactotrope Cells
Stanley B. DeVore, Coleman H. Young, Guang-Yuan Li, A. Sundararajan +6 more
2018Molecular and Cellular Biology31 citations Open access
Semantic Scholar
Characterization, correction and de novo assembly of an Oxford Nanopore genomic dataset from Agrobacterium tumefaciens
S. Deschamps, J. Mudge, Connor Cameron, Thiruvarangan Ramaraj +6 more
2016Scientific Reports30 citations Open access
Semantic Scholar
Comparative Genomics of an Unusual Biogeographic Disjunction in the Cotton Tribe (Gossypieae) Yields Insights into Genome Downsizing
C. Grover, M. Arick, Justin L. Conover, Adam Thrash +12 more
2017Genome Biology and Evolution27 citations Open access
Semantic Scholar
Gene Evolutionary Trajectories and GC Patterns Driven by Recombination in Zea mays
A. Sundararajan, Stefanie Dukowic-Schulze, M. Kwicklis, Kayla Engstrom +12 more
2016Frontiers in Plant Science22 citations Open access
Semantic Scholar
Pangenome-Wide Association Studies with Frequented Regions
Buwani Manuweera, J. Mudge, Indika Kahanda, B. Mumey +2 more
2019ACM International Conference on Bioinformatics, Computational Biology and Biomedicine21 citations Open access
Semantic Scholar
Zinc-Dependent Transcriptional Regulation in Paracoccus denitrificans
D. Neupane, Belkis Jacquez, A. Sundararajan, Thiruvarangan Ramaraj +2 more
2017Frontiers in Microbiology20 citations Open access
Semantic Scholar
Genome Sequence of Janthinobacterium sp. CG23_2, a Violacein-Producing Isolate from an Antarctic Supraglacial Stream
Heidi J. Smith, C. Foreman, T. Akiyama, M. Franklin +2 more
2016Genome Announcements19 citations Open access
Semantic Scholar
Sequencing-based large-scale genomics approaches with small numbers of isolated maize meiocytes
Stefanie Dukowic-Schulze, A. Sundararajan, Thiruvarangan Ramaraj, J. Mudge +1 more
2014Frontiers in Plant Science19 citations Open access
Semantic Scholar
Transcriptional changes and preservation of bone mass in hibernating black bears
Anna V Goropashnaya, Ø. Tøien, Thiruvarangan Ramaraj, A. Sundararajan +4 more
2021Scientific Reports16 citations Open access
Semantic Scholar
Dual Domestication, Diversity, and Differential Introgression in Old World Cotton Diploids
C. Grover, M. Arick, Adam Thrash, Joel Sharbrough +8 more
2021bioRxiv14 citations Open access
Semantic Scholar
Janthinobacterium CG23_2: Comparative Genome Analysis Reveals Enhanced Environmental Sensing and Transcriptional Regulation for Adaptation to Life in an Antarctic Supraglacial Stream
Markus Dieser, Heidi J. Smith, Thiruvarangan Ramaraj, C. Foreman
2019Microorganisms14 citations Open access
Semantic Scholar
Repertoire of virus-derived small RNAs produced by mosquito and mammalian cells in response to dengue virus infection
E. Schirtzinger, Christy C. Andrade, Nicholas P. Devitt, Thiruvarangan Ramaraj +3 more
2014Virology14 citations Open access
Semantic Scholar
Draft Genome Sequence of a Metabolically Diverse Antarctic Supraglacial Stream Organism, Polaromonas sp. Strain CG9_12, Determined Using Pacific Biosciences Single-Molecule Real-Time Sequencing Technology
Heidi J. Smith, C. Foreman, Thiruvarangan Ramaraj
2014Genome Announcements12 citations Open access
Semantic Scholar
Molecular and Biological Characterization of a New Isolate of Guinea Pig Cytomegalovirus
M. Schleiss, S. McAllister, A. Armién, Nelmary Hernandez-Alvarado +5 more
2014Viruses12 citations Open access
Semantic Scholar
Exploring Frequented Regions in Pan-Genomic Graphs
Alan M. Cleary, Thiruvarangan Ramaraj, Indika Kahanda, J. Mudge +1 more
2019IEEE/ACM Transactions on Computational Biology & Bioinformatics11 citations
Semantic Scholar
Augmenting Chinese hamster genome assembly by identifying regions of high confidence.
N. Vishwanathan, Arpan A Bandyopadhyay, H. Fu, Mohit Sharma +9 more
2016Biotechnology Journal11 citations
Semantic Scholar
De novo assembly of a tadpole shrimp (Triops newberryi) transcriptome and preliminary differential gene expression analysis
Rebekah L. Horn, Thiruvarangan Ramaraj, Nicholas P. Devitt, Faye D. Schilkey +1 more
2016Molecular Ecology Resources10 citations Open access
Semantic Scholar
Complete Genome Sequence of Streptomyces venezuelae ATCC 15439, Producer of the Methymycin/Pikromycin Family of Macrolide Antibiotics, Using PacBio Technology
Jing-Xuan He, A. Sundararajan, Nicholas P. Devitt, Faye D. Schilkey +2 more
2016Genome Announcements8 citations Open access
Semantic Scholar
High-Quality Draft Genome Sequence of Actinobacterium Kibdelosporangium sp. MJ126-NF4, Producer of Type II Polyketide Azicemicins, Using Illumina and PacBio Technologies
Yasushi Ogasawara, Norah Torrez-Martinez, A. Aragon, Benjamin Yackley +5 more
2015Genome Announcements8 citations Open access
Semantic Scholar
Cranberry-derived proanthocyanidins induce a differential transcriptomic response within Candida albicans urinary biofilms
A. Sundararajan, Hallie S. Rane, Thiruvarangan Ramaraj, Johnny A. Sena +4 more
2018PLoS ONE7 citations Open access
Semantic Scholar
The Gossypium herbaceum L. Wagad genome as a resource for understanding cotton domestication
Thiruvarangan Ramaraj, C. Grover, Azalea C. Mendoza, M. Arick +5 more
2022bioRxiv6 citations Open access
Semantic Scholar
Three Strains of Tobacco etch virus Distinctly Alter the Transcriptome of Apical Stem Tissue in Capsicum annuum during Infection
John F. Murphy, H. T. Hallmark, Thiruvarangan Ramaraj, A. Sundararajan +2 more
2021Viruses4 citations Open access
Semantic Scholar
Exploring Frequented Regions in Pan-Genomic Graphs
Alan M. Cleary, Indika Kahanda, Brendan Mumey, J. Mudge +1 more
2017ACM International Conference on Bioinformatics, Computational Biology and Biomedicine4 citations
Semantic Scholar
Genome Sequence of a Novel, Newly Identified Isolate of Guinea Pig Cytomegalovirus, the CIDMTR Strain
M. Schleiss, Nelmary Hernandez-Alvarado, Thiruvarangan Ramaraj, J. Crow
2013Genome Announcements4 citations Open access
Semantic Scholar
Optimizing Computer-Aided Diagnosis with Cost-Aware Deep Learning Models.
Charmi Patel, Yiyang Wang, Thiruvarangan Ramaraj, R. Tchoua +2 more
2023Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing3 citations Open access
Semantic Scholar
Draft Genomes of Heterogeneous Vancomycin-Intermediate Staphylococcus aureus Strain MM66 and MM66 Derivatives with Altered Vancomycin Resistance Levels
S. Matyi, Thiruvarangan Ramaraj, A. Sundararajan, I. Lindquist +6 more
2014Genome Announcements3 citations Open access
Semantic Scholar
Draft Genome Sequences of Vancomycin-Susceptible Staphylococcus aureus Related to Heterogeneous Vancomycin-Intermediate S. aureus
Thiruvarangan Ramaraj, S. Matyi, A. Sundararajan, I. Lindquist +6 more
2014Genome Announcements3 citations Open access
Semantic Scholar
Editorial: Omics applications in agriculture systems: unveiling functionality and practicality
Dinesh Adhikary, J. Mudge, Thiruvarangan Ramaraj
2025Frontiers in Plant Science2 citations Open access
Semantic Scholar
Enhancing sensitivity in lung nodule malignancy classification: incorporating cost values into deep learning-based CAD systems
Yiyang Wang, Charmi Patel, Thiruvarangan Ramaraj, R. Tchoua +2 more
2024Medical Imaging1 citations
Semantic Scholar
Clustering density based gene expression data in the mouse brainstem and comparison to actual neuroanatomy
Colin Buenvenida, Brandon Kong, Shane Jung, Kai-Wen Kam +2 more
2024IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology1 citations
Semantic Scholar
Genotype-to-Phenotype Associations with Frequented Region Variants
Indika Kahanda, Buwani Manuweera, Brendan Mumey, Thiruvarangan Ramaraj +2 more
2023IEEE International Conference on Bioinformatics and Biomedicine1 citations
Semantic Scholar

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