GenCLiP (Genes Cluster with Literature Profiles): a software program for clustering gene lists by literature profiling and constructing gene co-occurrence networks related to custom keywords.  GenCLiP is based on the method of Chaussabel and Sher that can retrieve gene-related literature from PubMed, extract keywords from this literature, provide the user with an interface with which to curate these keywords, and then cluster the genes with keywords. GenCLiP can also export a group of negative control genes and a group of positive control genes for comparing the cluster results with that of the analyzed genes. From the compared results, one can fast and easily acquire a primary profile of pathogenesis for a disease and this disease's known related genes. GenCLiP can further search the list of genes and the gene co-occurrence networks related to the specified keywords and/or certain genes. Random simulations are done to verify whether the analyzed gene list is related to the specified keywords, and/or engaged in the same networks related to the specified keywords. Thus, GenCLiP highlights the potent disease-related genes or pathways to be verified by experiment.