Bailey, Charles G., Gupta, Shailendra, Metierre, Cynthia, Amarasekera, Punkaja M.S., O'Young, Patrick, Kyaw, Wunna, Laletin, Tatyana, Francis, Habib, Semaan, Crystal, Sharifi Tabar, Mehdi, Singh, Krishna P., Mullighan, Charles G., Wolkenhauer, Olaf, Schmitz, Ulf, and Rasko, John (2021) Structure–function relationships explain CTCF zinc finger mutation phenotypes in cancer. Cellular and Molecular Life Sciences, 78. pp. 7519-7536.

Schmitz, Ulf, Gupta, Shailendra K., Vera, Julio, and Wolkenhauer, Olaf (2019) Computational approaches in microRNA biology. In: Narayan, Roger, (ed.) Encyclopedia of Biomedical Engineering. Elsevier, Amsterdam, The Netherlands, pp. 317-330.

Lai, Xin, Gupta, Shailendra K., Schmitz, Ulf, Marquardt, Stephan, Knoll, Susanne, Spitschak, Alf, Wolkenhauer, Olaf, Pützer, Brigitte M., and Vera, Julio (2018) MiR-205-5p and miR-342-3p cooperate in the repression of the E2F1 transcription factor in the context of anticancer chemotherapy resistance. Theranostics, 8 (4). pp. 1106-1120.

Khan, Faiz M., Marquardt, Stephan, Gupta, Shailendra K., Knoll, Susanne, Schmitz, Ulf, Spitschak, Alf, Engelmann, David, Vera, Julio, Wolkenhauer, Olaf, and Pützer, Brigitte M. (2017) Unraveling a tumor type-specific regulatory core underlying E2F1-mediated epithelial-mesenchymal transition to predict receptor protein signatures. Nature Communications, 8. 198.

Sadeghi, Mehdi, Ranjbar, Bijan, Ganjalikhany, Mohamad Reza, Khan, Faiz M., Schmitz, Ulf, Wolkenhauer, Olaf, and Gupta, Shailendra K. (2016) MicroRNA and transcription factor gene regulatory network analysis reveals key regulatory elements associated with prostate cancer progression. PLoS ONE, 11 (12). e0168760.

Gupta, Shailendra K., Jaitly, Tanushree, Schmitz, Ulf, Schuler, Gerold, Wolkenhauer, Olaf, and Vera, Julio (2016) Personalized cancer immunotherapy using Systems Medicine approaches. Briefings in Bioinformatics, 17 (3). pp. 453-467.

Schmitz, Ulf, Naderi-Meshkin, Hojjat, Gupta, Shailendra K., Wolkenhauer, Olaf, and Vera, Julio (2016) The RNA world in the 21st century-a systems approach to finding non-coding keys to clinical questions. Briefings in Bioinformatics, 17 (3). pp. 380-392.

Amirkhah, Raheleh, Farazmand, Ali, Gupta, Shailendra K., Ahmadi, Hamed, Wolkenhauer, Olaf, and Schmitz, Ulf (2015) Naïve Bayes classifier predicts functional microRNA target interactions in colorectal cancer. Molecular BioSystems, 11. pp. 2126-2134.

Schmitz, Ulf, Lai, Xin, Winter, Felix, Wolkenhauer, Olaf, Vera, Julio, and Gupta, Shailendra (2014) Cooperative gene regulation by microRNA pairs and their identification using a computational workflow. Nucleic Acids Research, 42 (12). pp. 7539-7552.

Lai, Xin, Schmitz, Ulf, Gupta, Shailendra K., Bhattacharya, Animesh, Kunz, Manfred, Wolkenhauer, Olaf, and Vera, Julio (2012) Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs. Nucleic Acids Research, 40 (18). pp. 8818-8834.

Gupta, Shailendra K., Gupta, Shishir K., Smita, Suchi, Srivastava, Mugdha, Lai, Xin, Schmitz, Ulf, Rahman, Qamar, Wolkenhauer, Olaf, and Vera, Julio (2011) Computational analysis and modeling the effectiveness of 'Zanamivir' targeting neuraminidase protein in pandemic H1N1 strains. Infection, Genetics and Evolution, 11 (5). pp. 1072-1082.

Gupta, Shishir K., Srivastava, Mugdha, Akhoon, Bashir A., Smita, Suchi, Schmitz, Ulf, Wolkenhauer, Olaf, Vera, Julio, and Gupta, Shailendra (2011) Identification of immunogenic consensus T-cell epitopes in globally distributed influenza-A H1N1 neuraminidase. Infection, Genetics and Evolution, 11 (2). pp. 308-319.