Poster: Empirical comparison of protocols for sequencing-based gene and isoform expression profiling. - Marius Nicolae; Ion I. Mandoiu (ICCABS, 2011)

Accurate Estimation of Gene Expression Levels from DGE Sequencing Data. - Marius Nicolae; Ion I. Mandoiu (ISBRA, 2011)

Maximum Likelihood Estimation of Incomplete Genomic Spectrum from HTS Data. - Serghei Mangul; Irina Astrovskaya; Marius Nicolae; Bassam Tork; Ion I. Mandoiu; Alexander Zelikovsky (WABI, 2011)

Estimation of alternative splicing isoform frequencies from RNA-Seq data. - Marius Nicolae; Serghei Mangul; Ion I. Mandoiu; Alex Zelikovsky (Algorithms Mol. Biol., 2011)

On string matching with k mismatches. - Marius Nicolae; Sanguthevar Rajasekaran (CoRR, 2013)

Ems1: an Elegant Algorithm for Edit Distance Based Motif Search. - Sudipta Pathak; Sanguthevar Rajasekaran; Marius Nicolae (Int. J. Found. Comput. Sci., 2013)

Efficient Sequential and Parallel Algorithms for Planted Motif Search. - Marius Nicolae; Sanguthevar Rajasekaran (BMC Bioinform., 2014)

An elegant algorithm for the construction of suffix arrays. - Sanguthevar Rajasekaran; Marius Nicolae (J. Discrete Algorithms, 2014)

On String Matching with Mismatches. - Marius Nicolae; Sanguthevar Rajasekaran (Algorithms, 2015)

An Error Correcting Parser for Context Free Grammars that Takes Less Than Cubic Time. - Sanguthevar Rajasekaran; Marius Nicolae (LATA, 2016)

On pattern matching with k mismatches and few don't cares. - Marius Nicolae; Sanguthevar Rajasekaran (Inf. Process. Lett., 2017)

Approximation Algorithms for the Primer Selection, PlantedMotif Search, and Related Problems. - Sudha Balla; Jaime I. Dávila; Marius Nicolae; Sanguthevar Rajasekaran (Handbook of Approximation Algorithms and Metaheuristics (2), 2018)