SOPRA: Scaffolding algorithm for paired reads via statistical optimization by Michael Todd P, Dayarian Adel, Sengupta Anirvan M

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Better estimation of protein-DNA interaction parameters improve prediction of functional sites by O'Flanagan Ruadhan A, Nagaraj Vijayalakshmi H, Sengupta Anirvan M

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OHMM: a Hidden Markov Model accurately predicting the occupancy of a transcription factor with a self-overlapping binding motif by Nagaraj Vijayalakshmi H, Gupta Nupur, Drawid Amar, Gélinas Céline, Sengupta Anirvan M

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Combined analysis of expression data and transcription factor binding sites in the yeast genome by Mathias Jonathan R, Bruning Adrian R, O'Flanagan Ruadhan A, Nagaraj Vijayalakshmi H, Vershon Andrew K, Sengupta Anirvan M

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