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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.

Guebel, Daniel V., Schmitz, Ulf, Wolkenhauer, Olaf, and Vera, Julio (2012) Analysis of cell adhesion during early stages of colon cancer based on an extended multi-valued logic approach. Molecular BioSystems, 8. pp. 1230-1242.

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Karimi, Mohammad Reza, Karimi, Amir Hossein, Abolmaali, Shamsozoha, Mehdi, Sadeghi, and Schmitz, Ulf (2022) Prospects and challenges of cancer systems medicine: from genes to disease networks. Briefings in Bioinformatics, 23 (1). bbab343.

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.

Khan, Faiz M., Schmitz, Ulf, Nikolov, Svetoslav, Engelmann, David, Pützer, Brigitte M., Wolkenhauer, Olaf, and Vera, Julio (2014) Hybrid modeling of the crosstalk between signaling and transcriptional networks using ordinary differential equations and multi-valued logic. Biochimica et Biophysica Acta. Protein Structure and Molecular Enzymology, 1844 (1). pp. 289-298.

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Lai, Xin, Schmitz, Ulf, and Vera, Julio (2022) The Role of MicroRNAs in Cancer Biology and Therapy from a Systems Biology Perspective. In: Schmitz, Ulf, Wolkenhauer, Olaf, and Vera, Julio, (eds.) The Role of MicroRNAs in Cancer Biology and Therapy from a Systems Biology Perspective. Advances in Experimental Medicine and Biology, 1385 . Springer, Cham, pp. 1-22.

Loiseau, Claire, Cooper, Martha M., and Doolan, Denise L. (2020) Deciphering host immunity to malaria using systems immunology. Immunological Reviews, 293 (1). pp. 115-143.

Longley, Rhea J., White, Michael T., Takashima, Eizo, Brewster, Jessica, Morita, Masayuki, Harbers, Matthias, Obadia, Thomas, Robinson, Leanne, Matsuura, Fumie, Liu, Zoe S.J., Li-Wai-Suen, Connie S.N, Tham, Wai-Hong, Healer, Julie, Huon, Christele, Chitnis, Chetan E., Nguitragool, Wang, Monteiro, Wuelton, Proietti, Carla, Doolan, Denise L., Siqueira, Andre M., Ding, Xavier C., Gonzalez, Iveth J., Kazura, James, Lacerda, Marcus, Sattabongkot, Jetsumom, Tsuboi, Takafumi, and Mueller, Ivo (2020) Development and validation of serological markers for detecting recent Plasmodium vivax infection. Nature Medicine, 26 (5). pp. 741-749.

Lai, X., Bhattacharya, A., Schmitz, U., Kunz, M., Vera, J., and Wolkenhauer, O. (2013) A systems' biology approach to study microrna-mediated gene regulatory networks. BioMed Research International, 2013. 703849.

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.

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Naderi-Meshkin, Hojjat, Lai, Xin, Amirkhah, Raheleh, Vera, Julio, Rasko, John E.J., and Schmitz, Ulf (2019) Exosomal lncRNAs and cancer: Connecting the missing links. Bioinformatics, 35 (2). pp. 352-360.

Nguyen, Vinh A., Carey, Leeanne M., Giummarra, Loretta, Faou, Pierre, Cooke, Ira, Howells, David W., Tse, Tamara, Macaulay, S. Lance, Ma, Henry, Davis, Stephen M., Donnan, Geoffrey A., and Crewther, Sheila G. (2016) A pathway proteomic profile of ischemic stroke survivors reveals innate immune dysfunction in association with mild symptoms of depression: a pilot study. Frontiers in Neurology, 7. 85. pp. 1-16.

Nikolov, Svetoslav, Vera, Julio, Schmitz, Ulf, and Wolkenhauer, Olaf (2010) A model-based strategy to investigate the role of microRNA regulation in cancer signalling networks. Theory in Biosciences, 130. pp. 55-69.

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Phie, J., Krishna, S.M., Kinobe, R., Moxon, J.V., Andrade-Lima, A., Morton, S.K., Lazzaroni, S.M., Huynh, P., and Golledge, J. (2021) Effects of quercetin on exercise performance, physical activity and blood supply in a novel model of sustained hind-limb ischaemia. BJS Open, 5 (1). zraa059.

Proietti, Carla, Krause, Lutz, Trieu, Angela, Dodoo, Daniel, Gyan, Ben, Koram, Kwadwo A., Rogers, William O., Richie, Thomas L., Crompton, Peter D., Felgner, Philip L., and Doolan, Denise L. (2020) Immune signature against Plasmodium falciparum antigens predicts clinical immunity in distinct Malaria endemic communities. Molecular and Cellular Proteomics, 19 (1). pp. 101-113.

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Schmitz, Ulf (2023) Overview of Computational and Experimental Methods to Identify Tissue-Specific MicroRNA Targets. In: Dalmay, Tamas, (ed.) MicroRNA Detection and Target Identification: Methods and Protocols. Methods in Molecular Biology, 2630 . Humana Press, New York, NY, USA, pp. 155-177.

Schmitz, Ulf, Wolkenhauer, Olaf, and Vera-González, Julio (2022) Systems Biology of MicroRNAs in Cancer. Advances in Experimental Medicine and Biology, 1385 . Springer Cham.

Schmitz, Ulf, Shah, Jaynish S., Dhungel, Bijay P., Monteuuis, Geoffray, Luu, Phuc-Loi, Petrova, Veronika, Metierre, Cynthia, Nair, Shalima S., Bailey, Charles G., Saunders, Verity A., Turhan, Ali G., White, Deborah L., Branford, Susan, Clark, Susan J., Hughes, Timothy P., Wong, Justin J.-L., and Rasko, John E.J. (2020) Widespread aberrant alternative splicing despite molecular remission in chronic myeloid leukaemia patients. Cancers, 12 (12). 3738.

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.

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.

Schmitz, Ulf, Wolkenhauer, Olaf, and Vera, Julio (2013) MicroRNA Cancer Regulation: Advanced Concepts, Bioinformatics and Systems Biology Tools. Advances in Experimental Medicine and Biology, 774 . Springer, Dordrecht, Netherlands.

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Vera, Julio, Wolkenhauer, Olaf, and Schmitz, Ulf (2014) Cancer Systems Biology: Current Achievements in – Omics Data Analysis, Network Reconstruction and Mathematical Modelling. In: UNSPECIFIED, (ed.) Encyclopedia of Life Sciences. John Wiley & Sons, Chichester, UK, pp. 1-12.

Vera, Julio, and Schmitz, Ulf (2013) Computational microRNA Biology. In: Dubitzky, Werner, Wolkenhauer, Olaf, Cho, Kwang-Hyun, and Yokota, Hiroki, (eds.) Encyclopedia of Systems Biology. Springer Nature, New York, NY, USA, pp. 473-480.

Vera, Julio, Schmitz, Ulf, Lai, Xin, Engelmann, David, Khan, Faiz M., Wolkenhauer, Olaf, and Pützer, Brigitte M. (2013) Kinetic modeling-based detection of genetic signatures that provide chemoresistance via the E2F1-p73/DNp73-miR-205 network. Cancer research, 73 (12). pp. 3511-3524.

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Wu, Siyuan, and Schmitz, Ulf (2023) Single-cell and long-read sequencing to enhance modelling of splicing and cell-fate determination. Computational and Structural Biotechnology Journal, 21. pp. 2373-2380.