Marius Nicolae

email: firstname.lastname@engr.uconn.edu

Ph.D. Thesis

Nicolae, Marius, "Data Structures and Algorithms for the Identification of Biological Patterns" (2016). University of Connecticut Doctoral Dissertations. Paper 1044. [link] [LaTex source code] [bibtex] [slides] [slides pptx]

M.S. Thesis

Nicolae, Marius, "Accurate Estimation of Isoform and Gene Expression Levels from Next Generation Sequencing Data" (2011). University of Connecticut Master's Theses. Paper 187. [link] [bibtex]

Research papers

Nicolae, Marius, and Sanguthevar Rajasekaran. "On pattern matching with k mismatches and few don't cares." arXiv:1602.00621 [cs.DS]. [link]

Nicolae, Marius, Sudipta Pathak, and Sanguthevar Rajasekaran. "LFQC: a lossless compression algorithm for FASTQ files." Bioinformatics (2015) 31 (20): 3276-3281. [link] [bibtex] [LFQC source code]

Nicolae, Marius, and Sanguthevar Rajasekaran. "On String Matching with Mismatches." Algorithms 8.2 (2015): 248-270. [link] [bibtex] [source code]

Nicolae, Marius, and Sanguthevar Rajasekaran. "qPMS9: An Efficient Algorithm for Quorum Planted Motif Search." Scientific reports 5 (2015). [link] [bibtex] [qPMS9 source code and test datasets]

Nicolae, Marius, and Sanguthevar Rajasekaran. "Efficient sequential and parallel algorithms for planted motif search." BMC bioinformatics 15.1 (2014): 34. [link] [bibtex] [PMS8 source code] [PMS8 test datasets]

Rajasekaran, Sanguthevar, and Marius Nicolae. "An elegant algorithm for the construction of suffix arrays." Journal of Discrete Algorithms 27 (2014): 21-28. [link] [bibtex] [RadixSA source code] [RadixSA test data]

More research at Prof. Mandoiu's Lab

Useful links

Prof. Raj