Counting motifs in dynamic networks. - Kingshuk Mukherjee; Md Mahmudul Hasan; Christina Boucher 001; Tamer Kahveci (BMC Syst. Biol., 2018)

Aligning optical maps to de Bruijn graphs. - Kingshuk Mukherjee; Bahar Alipanahi; Tamer Kahveci; Leena Salmela; Christina Boucher 001 (Bioinform., 2019)

Fast and accurate correction of optical mapping data via spaced seeds. - Leena Salmela; Kingshuk Mukherjee; Simon J. Puglisi; Martin D. Muggli; Christina Boucher 001 (Bioinform., 2020)

Fast and efficient Rmap assembly using the Bi-labelled de Bruijn graph. - Kingshuk Mukherjee; Massimiliano Rossi 001; Leena Salmela; Christina Boucher 001 (Algorithms Mol. Biol., 2021)

Finding Overlapping Rmaps via Clustering. - Kingshuk Mukherjee; Daniel Dole-Muinos; Massimiliano Rossi 001; Ayomide Ajayi; Mattia Prosperi; Christina Boucher 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)