Area of specialization: 010900 Applied Mathematics and Physics
Course: 12 Computational Physics
Course director: Prof. S.L. Yakovlev
Department of Computational Physics
Scientific adviser: Assoc. Prof. V.V. Monakhov
Reviewer: Ph.D., Dir. A. Lapidus

Development of rnaQUAST tool for quality assessment transcriptome assemblies
E. A. Bushmanova

NGS technologies allow to receive only short reads and thus emerge the problems of assembling reads in the longer fragments and evaluating the quality of the resulting fragments. This work is devoted to the rnaQUAST (rna QUality ASsesment Tool).
According to the results we can conclude:
●	Existing methods for assessing the quality of transcriptome assemblies are analyzed;
●	The rnaQUAST tool is developed. rnaQUAST tool shows the sensitivity and specificity of the assembled transcripts;
●	The comparisons of the leading transcriptome assemblers with rnaQUAST tool are provided and obtained results are interpreted;
●	The rnaQUAST and rnaSPAdes packages are integrated with ENOsi package for improvement fusion genes search;
●	The method of comparing the results obtained with the use of a single ENOsi package and consistent run rnaSPAdes and ENOsi packages is proposed;
●	The results are presented at the conference "Sequencing, Finishing, and Analysis in the Future Meeting 2015", Santa Fe, New Mexico, 27-29 May 2015;
●	The results are described in the publication [1].

The list of the publications:
1.	Elena Bushmanova, Alla Lapidus, Dmitry Antipov, Pavel A. Pevzner, Vladimir Suvorov and Andrey D. Prjibelski “rnaQUAST: a quality assessment tool for de novo transcriptome assemblies”, submitted to Bioinformatics.