MAPTor-Net

Otto, R., K. M. Detjen, P. Riemer, M. Fattohi, C. Grötzinger, G. Rindi, B. Wiedenmann, C. Sers, and U. Leser (2023). "Transcriptomic Deconvolution of Neuroendocrine Neoplasms Predicts Clinically Relevant Characteristics." Cancers 15(3): 936. doi.org/10.3390/cancers15030936.

Simon, T., P. Riemer, A. Jarosch, K. Detjen, A. Di Domenico, F. Bormann, A. Menne, S. Khouja, N. Monjé, L. H. Childs, D. Lenze, U. Leser, F. Rossner, M. Morkel, N. Blüthgen, M. Pavel, D. Horst, D. Capper, I. Marinoni, A. Perren, S. Mamlouk and C. Sers (2022). "DNA methylation reveals distinct cells of origin for pancreatic neuroendocrine carcinomas and pancreatic neuroendocrine tumors." Genome Medicine 14(1): 24. MAPTor-NET doi.org/10.1186/s13073-022-01018-w.

Detjen, K. M., R. Otto, Y. Giesecke, L. Geisler, P. Riemer, H. Jann, C. Grotzinger, C. Sers, A. Pascher, T. Ludde, U. Leser, B. Wiedenmann, M. Sigal, F. Tacke, C. Roderburg and L. Hammerich (2021). "Elevated Flt3L Predicts Long-Term Survival in Patients with High-Grade Gastroenteropancreatic Neuroendocrine Neoplasms." Cancers (Basel) 13(17). MAPTor-NET www.ncbi.nlm.nih.gov/pubmed/34503273.

Prentzell, M. T., U. Rehbein, M. Cadena Sandoval, A.-S. De Meulemeester, R. Baumeister, L. Brohée, B. Berdel, M. Bockwoldt, B. Carroll, S. R. Chowdhury, A. von Deimling, C. Demetriades, G. Figlia, M. E. G. de Araujo, A. M. Heberle, I. Heiland, B. Holzwarth, L. A. Huber, J. Jaworski, M. Kedra, K. Kern, A. Kopach, V. I. Korolchuk, I. van 't Land-Kuper, M. Macias, M. Nellist, W. Palm, S. Pusch, J. M. Ramos Pittol, M. Reil, A. Reintjes, F. Reuter, J. R. Sampson, C. Scheldeman, A. Siekierska, E. Stefan, A. A. Teleman, L. E. Thomas, O. Torres-Quesada, S. Trump, H. D. West, P. de Witte, S. Woltering, T. E. Yordanov, J. Zmorzynska, C. A. Opitz and K. Thedieck (2021). "G3BPs tether the TSC complex to lysosomes and suppress mTORC1 signaling." Cell 184(3): 655-674 e627. GlioPATH & MAPTor-NET doi.org/10.1016/j.cell.2020.12.024.

Gastl, B., Klotz-Noack, K., Klinger, B., Ispasanie, S., Salib, K. H. F., Zuber, J., Mamlouk, S., Bublitz, N., Bluethgen, N., Horst, D., Morkel, M., Schaefer, R. and Sers, C. (2020). "Reduced replication origin licensing selectively kills KRAS-mutant colorectal cancer cells via mitotic catastrophe." Cell Death & Disease 11(7). doi.org/10.1038/s41419-020-2704-9.

Bork, T., Liang, W., Yamahara, K., Lee, P., Tian, Z., Liu, S., Schell, C., Thedieck, K., Hartleben, B., Patel, K., Tharaux, P. L., Lenoir, O. and Huber, T. B. (2019). "Podocytes maintain high basal levels of autophagy independent of mtor signaling." Autophagy: 1-17. www.ncbi.nlm.nih.gov/pubmed/31865844.

Diosa-Toro, M., Troost, B., van de Pol, D., Heberle, A. M., Urcuqui-Inchima, S., Thedieck, K. and Smit, J. M. (2019). "Tomatidine, a novel antiviral compound towards dengue virus." Antiviral Research 161: 90-99. www.ncbi.nlm.nih.gov/pubmed/30468746.

Heberle, A. M., Razquin Navas, P., Langelaar-Makkinje, M., Kasack, K., Sadik, A., Faessler, E., Hahn, U., Marx-Stoelting, P., Opitz, C. A., Sers, C., Heiland, I., Schauble, S. and Thedieck, K. (2019). "The PI3K and MAPK/p38 pathways control stress granule assembly in a hierarchical manner." Life Sci Alliance 2(2). www.ncbi.nlm.nih.gov/pubmed/30923191.

Otto, R., Rossler, J. N., Sers, C., Mamlouk, S. and Leser, U. (2019). "Robust in-silico identification of Cancer Cell Lines based on RNA and targeted DNA sequencing data." Sci Rep 9(1): 367. www.ncbi.nlm.nih.gov/pubmed/30674903.

Rohwer, N., Jumpertz, S., Erdem, M., Egners, A., Warzecha, K. T., Fragoulis, A., Kuhl, A. A., Kramann, R., Neuss, S., Rudolph, I., Endermann, T., Zasada, C., Apostolova, I., Gerling, M., Kempa, S., Hughes, R., Lewis, C. E., Brenner, W., Malinowski, M. B., Stockmann, M., Schomburg, L., Faller, W., Sansom, O. J., Tacke, F., Morkel, M. and Cramer, T. (2019). "Non-canonical HIF-1 stabilization contributes to intestinal tumorigenesis." Oncogene 38(28): 5670-5685. www.ncbi.nlm.nih.gov/pubmed/31043706.

Dorel, M., Klinger, B., Gross, T., Sieber, A., Prahallad, A., Bosdriesz, E., Wessels, L. F. A. and Blüthgen, N. (2018). "Modelling signalling networks from perturbation data." Bioinformatics (Oxford, England) 34(23): 4079-4086. www.ncbi.nlm.nih.gov/pubmed/29931053.

Li, Y., Finkbeiner, S., Ganner, A., Gerber, J., Klein, M., Grafe, M., Kandzia, J., Thien, A., Thedieck, K., Breves, G., Jank, T., Baumeister, R., Walz, G. and Neumann-Haefelin, E. (2018). "CGEF-1 regulates mTORC1 signaling during adult longevity and stress response in C. elegans." Oncotarget 9(11): 9581-9595. www.ncbi.nlm.nih.gov/pubmed/29515755.

Seva, J., Wackerbauer, M. and Leser, U. (2018). Identifying Key Sentences for Precision Oncology Using Semi-Supervised Learning. BioNLP 2018 workshop. Melbouren, Australia. aclweb.org/anthology/W18-2305.

Shafiee Kamalabad, M., Heberle, A. M., Thedieck, K. and Grzegorczyk, M. (2018). "Partially non-homogeneous dynamic Bayesian networks based on Bayesian regression models with partitioned design matrices." Bioinformatics. www.ncbi.nlm.nih.gov/pubmed/30395165.

Starlinger, J., Pallarz, S., Ševa, J., Rieke, D., Sers, C., Keilholz, U. and Leser, U. (2018). "Variant information systems for precision oncology %J BMC Med. Inf. Decis. Making."  18(1): 107. www.ncbi.nlm.nih.gov/pubmed/30463544.

Weise, S. C., Villarreal, A., Heidrich, S., Dehghanian, F., Schachtrup, C., Nestel, S., Schwarz, J., Thedieck, K. and Vogel, T. (2018). "TGFβ-Signaling and FOXG1-Expression Are a Hallmark of Astrocyte Lineage Diversity in the Murine Ventral and Dorsal Forebrain." Frontiers in Cellular Neuroscience 12. www.ncbi.nlm.nih.gov/pubmed/30555301.

Witzel, F. and Blüthgen, N. (2018). "When More Is Less: Dual Phosphorylation Protects Signaling Off State against Overexpression." Biophysical Journal 115(7): 1383-1392. www.ncbi.nlm.nih.gov/pubmed/30217381.

Klinghammer, K., Otto, R., Raguse, J.-D., Albers, A. E., Tinhofer, I., Fichtner, I., Leser, U., Keilholz, U. Hoffmann, J., 2017. Basal subtype is predictive for response to cetuximab treatment in patient-derived xenografts of squamous cell head and neck cancer, J Int. J. Cancer, 141(6), 1215--1221. doi.org/10.1002/ijc.30808

Otto, R., Sers, C., Leser, U., 2017. Robust in-silico identification of cancer cell lines based on next generation sequencing. Oncotarget 8, 34310–34320. doi.org/10.18632/oncotarget.16110

Razquin Navas, P., Thedieck, K., 2017. Differential control of ageing and lifespan by isoforms and splice variants across the mTOR network. Essays Biochem. 61, 349–368. doi.org/10.1042/EBC20160086

Ruf, S., Heberle, A.M., Langelaar-Makkinje, M., Gelino, S., Wilkinson, D., Gerbeth, C., Schwarz, J.J., Holzwarth, B., Warscheid, B., Meisinger, C., van Vugt, M.A.T.M., Baumeister, R., Hansen, M., Thedieck, K., 2017. PLK1 (polo like kinase 1) inhibits MTOR complex 1 and promotes autophagy. Autophagy 13, 486–505. doi.org/10.1080/15548627.2016.1263781

Thobe, K., Sers, C., Siebert, H., 2017. Unraveling the regulation of mTORC2 using logical modeling. Cell Commun. Signal. 15, 6. doi.org/10.1186/s12964-016-0159-5

Uhlitz, F., Sieber, A., Wyler, E., Fritsche-Guenther, R., Meisig, J., Landthaler, M., Klinger, B., Blüthgen, N., 2017. An immediate-late gene expression module decodes ERK signal duration. Mol. Syst. Biol. 13, 928.

Clark, C.A., Gupta, H.B., Sareddy, G., Pandeswara, S., Lao, S., Yuan, B., Drerup, J.M., Padron, A., Conejo-Garcia, J., Murthy, K., Liu, Y., Turk, M.J., Thedieck, K., Hurez, V., Li, R., Vadlamudi, R., Curiel, T.J., 2016. Tumor-Intrinsic PD-L1 Signals Regulate Cell Growth, Pathogenesis, and Autophagy in Ovarian Cancer and Melanoma. Cancer Res. 76, 6964–6974. doi.org/10.1158/0008-5472.CAN-16-0258

Pezze, P.D., Ruf, S., Sonntag, A.G., Langelaar-Makkinje, M., Hall, P., Heberle, A.M., Navas, P.R., van Eunen, K., Tölle, R.C., Schwarz, J.J., Wiese, H., Warscheid, B., Deitersen, J., Stork, B., Fäßler, E., Schäuble, S., Hahn, U., Horvatovich, P., Shanley, D.P., Thedieck, K., 2016. A systems study reveals concurrent activation of AMPK and mTOR by amino acids. Nat Commun 7, 13254. doi.org/10.1038/ncomms13254