Názov:Probabilistic Models for Genome Assembly with Chromatin Interaction Frequencies
Vedúci:doc. Mgr. Bronislava Brejová, PhD.
Kµúčové slová:Genome assembly, maximum likelihood, probabilistic modeling, Hi-C, chromatin interaction frequencies, GAML
Abstrakt:In this paper we have addressed the task of genome assembly using the data of chro- matin interactions (Hi-C). Inspired by the work of Kaplan and Dekker [1], we have proposed our own probabilistic model for Hi-C data, suited specifically for the GAML framework for genome assembly [2]. As the original GAML implementation was a prototype not meant to be extended, we have reimplemented most of its features in the second implementation, called GAML2, and then added our model and algorithms to process Hi-C data. We have shown that our implementation of GAML is able to perform better with Hi-C data available.

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