Quantitative synteny scoring improves homology inference and partitioning of gene families. - Raja Ali; Sayyed Muhammad; Mehmood Alam Khan; Lars Arvestad (BMC Bioinform., 2013)

fastphylo: Fast tools for phylogenetics. - Mehmood Alam Khan; Isaac Elias; Erik Sjölund; Kristina Nylander; Roman Valls Guimera; Richard Schobesberger; Peter Schmitzberger; Jens Lagergren; Lars Arvestad (BMC Bioinform., 2013)

Probabilistic inference of lateral gene transfer events. - Mehmood Alam Khan; Owais Mahmudi; Ikram Ullah 004; Lars Arvestad; Jens Lagergren (BMC Bioinform., 2016)

Computational Problems in Modeling Evolution and Inferring Gene Families. - Mehmood Alam Khan (2016)