Probabilistic retrieval and visualization of biologically relevant microarray experiments. - José Caldas; Nils Gehlenborg; Ali Faisal; Alvis Brazma; Samuel Kaski (BMC Bioinform., 2009)

Inferring species interaction networks from species abundance data: A comparative evaluation of various statistical and machine learning methods. - Ali Faisal; Frank Dondelinger; Dirk Husmeier; Colin M. Beale (Ecol. Informatics, 2010)

Sparse Nonparametric Topic Model for Transfer Learning. - Ali Faisal; Jussi Gillberg; Jaakko Peltonen; Gayle Leen; Samuel Kaski (ESANN, 2012)

Data-driven information retrieval in heterogeneous collections of transcriptomics data links SIM2s to malignant pleural mesothelioma. - José Caldas; Nils Gehlenborg; Eeva Kettunen; Ali Faisal; Mikko Rönty; Andrew G. Nicholson; Sakari Knuutila; Alvis Brazma; Samuel Kaski (Bioinform., 2012)

Comprehensive data-driven analysis of the impact of chemoinformatic structure on the genome-wide biological response profiles of cancer cells to 1159 drugs. - Suleiman A. Khan; Ali Faisal; John Mpindi; Juuso A. Parkkinen; Tuomo Kalliokoski; Antti Poso; Olli-P. Kallioniemi; Krister Wennerberg; Samuel Kaski (BMC Bioinform., 2012)

Transfer learning using a nonparametric sparse topic model. - Ali Faisal; Jussi Gillberg; Gayle Leen; Jaakko Peltonen (Neurocomputing, 2013)

Retrieval of Gene Expression Measurements with Probabilistic Models. - Ali Faisal (2014)

Kernel Convolution Model for Decoding Sounds from Time-Varying Neural Responses. - Ali Faisal; Anni Nora; Jaeho Seol; Hanna Renvall; Riitta Salmelin (PRNI, 2015)

Establishing Video Game Genres Using Data-Driven Modeling and Product Databases. - Ali Faisal; Mirva Peltoniemi (Games Cult., 2018)