miRSel: Automated extraction of associations between microRNAs and genes from the biomedical literature. - Haroon Naeem; Robert Küffner; Gergely Csaba; Ralf Zimmer (BMC Bioinform., 2010)

Rigorous assessment of gene set enrichment tests. - Haroon Naeem; Ralf Zimmer; Pegah Tavakkolkhah; Robert Küffner (Bioinform., 2012)

Activity of microRNAs and transcription factors in Gene Regulatory Networks: Activity of microRNAs and transcription factors in Gene Regulatory Networks. - Haroon Naeem (2012)