2018
Classification of pathogenic microbes using a minimal set of single nucleotide polymorphisms derived from whole genome sequences
Roychowdhury T, Singh VK, Bhattacharya A. Classification of pathogenic microbes using a minimal set of single nucleotide polymorphisms derived from whole genome sequences. Genomics 2018, 111: 205-211. PMID: 29432978, DOI: 10.1016/j.ygeno.2018.02.004.Peer-Reviewed Original ResearchConceptsIntra-species genomic variationsPathogenic microbesClassification of organismsWhole genome sequencesContext-specific mannerGenome sequencePhenotypic diversityGenomic variationSingle nucleotide polymorphismsMolecular markersNGS technologiesEscherichia coliNucleotide polymorphismsSpecific mannerE. coliSNPsPathogen classificationMicrobesOrganismsWealth of dataColiMinimal setImportant rolePhylogroupsDiversity
2013
Next-Generation Anchor Based Phylogeny (NexABP): Constructing phylogeny from Next-generation sequencing data
Roychowdhury T, Vishnoi A, Bhattacharya A. Next-Generation Anchor Based Phylogeny (NexABP): Constructing phylogeny from Next-generation sequencing data. Scientific Reports 2013, 3: 2634. PMID: 24022334, PMCID: PMC3769656, DOI: 10.1038/srep02634.Peer-Reviewed Original ResearchConceptsPhylogenetic analysisNext-generation sequencing datasetsWhole genome sequencesNGS dataNext-generation sequencing dataEvolutionary relationshipsStrains/isolatesPhylogenetic constructionDistinct lineagesReference genomeGenome sequenceSequencing datasetsSequencing dataEscherichia coliPhylogenyDifferent strainsVibrio choleraBootstrap analysisGenomeLineagesOrganismsColiInner branchesUnprecedented scalePathogens