Journal Publications and Conference Proceedings


  1. L. Palma Medina, A.-K. Becker, S. Michalik, K. Surmann, P. Hildebrandt, M. Gesell Salazar, S.A. Mekonnen, L. Kaderali, U. Völker, J.M. van Dijl (2020). Interaction of Staphylococcus aureus and host cells upon infection of bronchial epithelium during different stages of regeneration, ACS Infectious Diseases, in press.
  2. N. Holzscheck, J. Söhle, B. Kristof, E. Grönninger, S. Gallinat, H. Wenck, M. Winnefeld, C. Falckenhayn*, L. Kaderali* (2020). Mulit-omics networks analysis reveals distinct stages in the human aging progression in epidermal tissue.Aging, in press.
  3. D. Schweinoch, P. Bachmann, D. Clausznitzer, M. Binder, L. Kaderali (2020). Mechanistic modeling explains the dsRNA length-dependent activation of the RIG-I mediated immune response, J Theor Biol, in press.
  4. C. Zitzmann, B. Schmid, A. Ruggieri, A.S. Perelson, M. Binder, R. Bartenschlager, L. Kaderali (2020). A Coupled Mathematical Model of the Intracellular Replication of Dengue Virus and the Host Cell Immune Response to Infection. Front. Microbiol., in press.
  5. H. Müller, A.-K. Becker, G. Palm, L. Berndt, C.P.S. Badenhorst, S.P. Godehard, L. Reisky, M. Lammers, U. Bornscheuer (2020). Sequence-Based Prediction of Promiscuous Acyltransferase Activity in Hydrolases. Angew Chem, in press.
  6. M. Gholizadeh, J. Fayazi, Y- Asgari, H. Zali, L. Kaderali (2020). Reconstruction and analysis of cattle metabolic networks in normal and acidosis rumen tissue. Animals, in press.
  7. C. Luz, M. Vollmer, J. Decruyenaere, M. Nijsten, C. Glasner, B. Sinha (2020). Machine learning in infection management using routine electronic health records: tools, techniques, and reporting of future technologies. Clinical Microbiology and Infection, in press.
  8. T. Herr, T. Hummel, M. Vollmer, C. Willert, B. Veit, J. Gamain, R. Fleischmann, B. Lehnert, J.-U. Müller, A. Stenner, M. Kronenbürger (2020). Smell and taste in cervical dystonia. Journal of Neural Transmission, in press.
  9. S. Dirmeier, C. Dächert, M. van Hemert, A. Tas, N.S. Ogando, F. van Kuppeveld, R. Bartenschlager, L. Kaderali, M. Binder, N. Beerenwinkel (2020). Host factor prioritization for pan-viral genetic perturbation screens using random intercept models and network propagation. PLOS Comp Biol 16(2):e1007587.
  10. F. Kriesel, L. Stegmann, S. Ciesek, L. Kaderali, H.-M. Baldauf (2020). Efficient inactivation of pseudotyped HIV-based lentiviral vectors and infectious HIV. J Virol Methods, 276:113768.
  11. 2019

  12. J. Schwarzenbacher, S.-O. Kuhn, M. Vollmer, C. Scheer, C. Fuchs, S. Rehberg, V. Balau, K. Hahnenkamp, J.A. Bohnert, M. Gründling (2019). On-site blood culture incubation shortens the time to knowledge of positivity and microbiological results in septic patients. PLOS One 14(12):e0225999.
  13. B. Metelmann, C. Metemann, L. Schneider, M. Vollmer, M. Fischer, A. Bohn, J. Wnent, K. Hahnenkamp, P. Brinkrolf (2019). Anstieg der Laienreanimationsrate in Deutschland geht mit vermehrter Telefonreanomation einher. Der Notarzt 35(06), 232-328.
  14. N. Nath, L. Hagenau, S. Weiss, A. Tzvetkova, L.R. Jensen, L. Kaderali, M. Port, H. Scherthan, A.W. Kuss (2019). Ionizing Radiation alters the transition/transversion ratio in the exome of human gingiva fibroblasts. Health Physics Journal, in press.
  15. G. Köhler*, M. Vollmer*, N. Nath, P.-A. Hessler, K. Dennis, A. Lehr, M. Köller, C. Riechmann, H. Bralo, D. Trojnarska, H. Lehnhoff, J. Krichbaum, M. Krichbaum, K. Evert, M. Evert, M. Zygmunt*, L. Kaderali* (2019). Benign uterine mass - Discrimination from leiomyosarcoma by a preoperative risk score: a multicenter cohort study. Archives of Gynecology and Obstetrics 300(6):1719-1727.
  16. A.-K. Becker, H. Holzmann (2019). Nonparametric identification in the dynamic stochastic block model. IEEE Transactions on Information Theory 56(7):4335-44.
  17. T. Westphal, W. Konschake, H. Haase, M. Vollmer, M. Jünger, H. Riebe (2019). Medical compression stockings on the skin moisture in patients with chronic venous disease. Vasa, in press.
  18. T. Oellerich, C. Schneider, D. Thomas, K. Knecht, O. Buzovetsky, L. Kaderali, C. Schliemann, H. Bohnenberger, L. Angenendt, W. Hartmann, E. Wardelmann, T. Rothenburger, S. Mohr, S. Scheich, F. Comoglio, A. Wilke, P. Ströbel, H. Serve, M. Michaelis, N. Ferreiros, G. Geisslinger, Y. Xiong, O. Keppler, J. Cinatl (2019). Selective Inactivation of Hypomethylating Agents by SAMHD1 Provides a Rationale for Therapeutic Stratification in AML. Nature Comm. 10(1):3475.
  19. M. Cortese, A. Kumar, P. Matula, L. Kaderali, P. Scaturro, H. Erfle, E.G. Acosta, S. Buehler, A. Ruggieri, L. Chatel-Chaix, K. Rohr, R. Bartenschlager (2019). Reciprocal Effects of Fibroblast Growth Factor Receptor Signaling on Dengue Virus Replication and Virion Production. Cell Rep. 27(9):2579-92.
  20. N. Exner, J.A. Valenzuela-Campos, K. Abou-El-Ardat, H. Miletic, P. Huszthy, P. Radehaus, E. Schröck, R. Bjerkvig, L. Kaderali, B. Klink, J. Nigro (2019) Deep sequencing of a recurrent oligodentroglioma and the derived xenografts reveals new insights into the evolution of human oligodendroglioma and candidate driver genes. Oncotarget 10(38):3641-3653.
  21. L.M. Palma Medina, A.K. Becker, S. Michalik, H. Yedavally, E.J.M. Raineri, P. Hildebrandt, M. Gesell Salazar, K. Surmann, H. Pförtner, S.A. Nekonnen, A. Salvati, L. Kaderali, J.M. van Dijl, U. Völker (2019). Metabolic cross-talk between human bronchial epithelial cells and internalized Staphylococcus aureus as a driver for infection. Mol Cell Proteomics 18(5):892-908.
  22. L. Kaderali, F. Theis, V.V. Ganusov, S.M. Ciupe, R. Mehr, R.M. Ribeiro, E.A. Hernandez-Vargas (2019). Editorial: Integrative Computational Systems Biology Approaches in Immunology and Medicine. Front Microbiol 9:3338.
  23. P. Jansen, A. Sümnig, M. Esefeld, K. Greffin, L. Kaderali, A. Greinacher (2019). Well-being and return rate of first-time whole blood donors. Vox Sanguinis 114(2):154-161.
  24. A. E-Shershaby, S. Ullrich, S. Simm, K.D. Scharf, E. Schleiff, S. Fragkostefanakis (2019). Functional diversification of tomato HsfA1 factors is based on DNA binding domain properties. Gene. 714:143985.
  25. U.S. Bodensohn, S. Simm, K. Fischer, M. Jaeschke, L.E. Gross, K. Kramer, C. Ehmann, S.A. Rensing, R. Ladig, E. Schleiff (2019). The intracellular distribution of the components of the GET system in vascular plants. Biochim Biophys Acta Mol Cell Res. 1866(10):1650-1662.
  26. J. Berz, S. Simm, S. Schuster, K.D. Scharf, E. Schleiff, I. Ebersberger (2019). HEATSTER: A Database and Web Server for Identification and Classification of Heat Stress Transcription Factors in Plants. Bioinform. Biol. Insights eCollection: 13:1177932218821365.
  27. S. Fragkostefanakis, S. Simm, A. El-Shershaby, Y. Hu, D. Bublak, A. Mesihovic, K. Darm, S.K. Mishra, B. Tschiersch, K. Theres, C. Scharf, E. Schleiff, K.D. Scharf (2019). The repressor and co-activator HsfB1 regulates the major heat stress transcription factors in tomato. Plant Cell Environ. 42(3):874-890.
  28. J. Kovacevic, D. Palm, D. Jooss, D. Bublak, S. Simm, E. Schleiff (2019). Co-orthologues of ribosome biogenesis factors in A. thaliana are differentially regulated by transcription factors. Plant Cell Rep., in press.
  29. D. Palm, D. Streit, T. Shanmugam, B.L. Weis, M. Ruprecht, S. Simm, E. Schleiff (2019). Plant-specific ribosome biogenesis factors in Arabidopsis thaliana with essential function in rRNA processing. Nucleic Acids Res. 47(4):1880-1895.
  30. K. Wiesemann, S. Simm, O. Mirus, R. Ladig, E. Schleiff (2019). Regulation of two GTPases Toc159 and Toc34 in the translocon of the outer envelope of chloroplasts. Biochim. Biophys. Acta Proteins Proteom 1867(6):627-636.
  31. 2018

  32. K.M. Knecht, O. Buzovetsky, C. Schneider. D. Thomas, V. Srikanth, L. Kaderali, F. Tofoleanu, K. Reiss, N. Ferreiros, G. Geisslinger, V.S. Batista, X. Ji,. J Jr Cinatl, O.T. Keppler, Y. Xiong (2018). The structural basis for cancer drug interactions with the catalytic and allosteric sites of SAMHD1. Proc Natl Acad SCI USA 115(43):E10022-E10031.
  33. P. Sodmann, M. Vollmer, N. Nath, L. Kaderali (2018). A Convolutional Neural Network for ECG Annotation as the Basis for Classification of Cardiac Rythms. Physiological Measurements 39(10):104005.
  34. C.S. Scheer, C. Fuchs, M. Gründling, M. Vollmer, J. Bast, J.A. Bohnert, K. Zimmermann, K. Hahnenkamp, S. Rehberg, S.-O. Kuhn (2018). Impact of antibiotic administration on blood culture positivity at the beginning of sepsis: a prospective clinical cohort study. Clin Microb Inf 25(3):326-331.
  35. C.S. Scheer, S.-O. Kuhn, C. Fuch, M. Vollmer, A. Modler, F. Brunkhorst, M. Shankar-Hari, K. Hahnenkamp, M. Gründling, S. Rehberg (2018). Do Sepsis-3 criteria facilitate earlier recognition of sepsis and septic shock? A retrospective cohort study. SHOCK 51(3):306-311.
  36. M. Gast, B.H. Rauch, S. Nakagawa, A. Haghikia, A. Jasina, J. Haas, N. Nath, L. Jensen, A. Stroux, A. Böhm, J. Friebel, U. Rauch, C. Skurk, S. Blankenberg, T. Zeller, K.V. Prasanth, B. Meder, A. Kuss, U. Landmesser, W. Poller (2018). Immune system-mediated atherosclerosis caused by deficiency of long noncoding RNA MALAT1 in ApoE-/- mice, Cardiovascular Research 115(2):302-314.
  37. H. Bohnenberger*, L. Kaderali*, P. Ströbel, D. Yepes, U. Plessmann, S. Yao, C. Heydt, S. Merkelbach-Bruse, A. Emmert, J. Hoffmann, J. Bodemeyer, K. Reuter-Jessen, A.-M. Lois, L.H. Dröge, P. Baumeister, C. Walz, L. Biggemann, R. Walter, B. Häupl, F. Comoglio, K.-T. Pan, S. Scheich, C. Lenz, S. Küffer, F. Bremmer, J. Kitz, M. Sitte, T. Beissbarth, M. Hinterthaner, M. Sebastian, J. Lotz, H.-U. Schildhaus, H. Wolff, B.C. Danner, C. Brandts, R. Büttner, M. Canis, H. Serve, H. Urlaub, T. Oellerich (2018). Comparative proteomics reveals a diagnostic signature for pulmonary head-and-neck cancer metastasis. EMBO Mol. Med. 10(9), pii: e8428.
  38. J. Bruening, L. Lasswitz, P. Banse, S. Kahl, C. Marinach, F.W. Vondran, L. Kaderali, O. Silvie, T. Pietschmann, F. Meissner, G. Gerold (2018). Hepatitis C virus enters liver cells using the CD81 receptor complex proteins calpain-5 and CBLB. PLOS Pathogens 14(7):e1007111.
  39. N. Endlich, T. Lange, J. Kuhn, P. Klemm, A.M. Kotb, F. Siegerist, F. Kindt, M.T. Lindenmeyer, C.D.Cohen, A.W. Kuss, N. Nath, R. Rettig, U. Lendeckel, U. Zimmermann, K. Amann, S. Stracke, K. Endlich (2018) BDNF: mRNA expression in urine cells of patients with chronic kidney disease and its role in kidney function. J Cell Mol Med 22(11):5265-5277.
  40. C. Zitzmann, L. Kaderali (2018). Mathematical Analysis of Viral Replication Dynamics and Antiviral Treatment Strategies: From Basic Models to Age-based Multiscale Modeling. Frontiers in Microbiology 9:1546.
  41. M. del Mar Saez-Freire, A. Blanco-Gomez, S. Castillo-Lluva, A. Gomez-Vecino, J.M. Galvis-Jimenez, C. Martin-Seisdedos, M. Isidoro-Garcia, L. Hontecillas-Prieto, M.B. Garcia-Cenador, F.J. Garcia-Criado, M.C. Patino-Alonso, P. Galindo-Villardon, J.-H. Mao, C. Prieto, A. Castellanos-Martin, L. Kaderali, J. Perez-Losada (2018). Supplementary data for the biological age linked to oxidative stress modifies breast cancer aggressiveness. Data Brief 18:1172-84.
  42. S. Noack, M. Raab, Y. Matthess, M. Sanhaji, A. Krämer, B. Gyorffy, L. Kaderali, A. El-Balat, S. Becker, K. Strebhardt (2019). Synthetic lethality in CCNE1-amplified high grade serous ovarian cancer through combined inhibition of Polo-like kinase 1 and microtubule dynamics. Oncotarget 9(40):25842-59.
  43. N. Nath, J. Esche, L.R. Jensen, M- Port, M. Stanke, L. Kaderali, H. Scherthan, A.W.Kuss (2018). Exome Sequencing Discloses Ionizing-radiation-induced DNA Variants in the Genome of Human Gingiva Fibroblasts. Health Phys 115(1):151-160.
  44. A.-K. Becker, H. Erfle, M. Gunkel, N. Beil, L. Kaderali*, V. Starkuviene* (2018). Comparison of cell arrays and multi-well plates in microscopy-based screening. High Throughput 7(2) pii:E13..
  45. M. del Mar Saez-Freir, A. Blanco-Gomez, S. Castillo-Lluva, A. Gomez-Vecino, J.M. Galvis-Jimenez, C. Martin-Seisdedos, M. Isidoro-Garcia, L. Hontecillas-Prieto, M.B. Garcia-Cenador, F.J. Garcia-Criado, M.C. Patino-Alonso, P. Galindo-Villardon, J.-H. Mao, C. Prieto, A. Castellanos-Martin, L. Kaderali, J. Perez-Losada (2018). The biological age linked to oxidative stress modifies breast cancer aggressiveness. Free Radical Biology & Medicine 120:133-146, doi: 10.1016/j.freeradbiomed.2018.03.012..
  46. R. Appweiler, T. Beissbarth, M.R. Berthold, N. Blüthgen, Y. Burmeister, O. Dammann, A. Deutsch, F. Feuerhake, A. Franke, J. Hasenauer, S. Hoffmann, T. Höfer, P.L. JansenL, L. Kaderali, U. Klingmüller, I. Koch, O. Kohlbacher, L. Kuepfer, F. Lammert, D. Maier, N. Pfeifer, N. Radde, M. Rehm, I. Roeder, J. Saez-Rodriguez, U. Sax, B. Schmeck, A. Schuppert, B. Seilheimer, F.J. Theis, J. Vera, O. Wolkenhauer (2018). Whither systems medicine? Exp Mol Med. 50(3):e453, doi: 10.1038/emm.2017.290.
  47. D. Palm, D. Streit, M. Ruprecht, S. Simm, C. Scharf, E. Schleiff (2018). Late ribosomal protein localization in Arabidopsis thaliana differs to that in Saccharomyces cerevisiae. FEBS Open Bio. 8(9):1437-1444.
  48. M. Keller, SPOT-ITN Consortium, S. Simm (2018). The coupling of transcriptome and proteome adaptation during development and heat stress response of tomato pollen. BMC Genomics 19(1):447.
  49. S. Lampe, M. Kunze, A. Scholz, T.F. Brauss, S. Winslow, S. Simm, M. Keller, J. Heidler, I. Wittig, B. Brüne, T. Schmid (2018). Identification of the TXNIP IRES and characterization of the impact of regulatory IRES trans-acting factors. Biochim. Biophys. Acta Gene Regul. Mech. 1861(2):147-157.


  50. C. Scheer, C. Fuchs, S. Kuhn, M. Vollmer, S. Rehberg, S. Friesecke, P. Abel, V. Balau, C. Bandt, K. Meissner, K. Hahnenkamp, M. Gründling (2017). Qualitys improvement initiative for severe sepsis and septic shock reduced 90-day mortality: A 7.5-year observational study.. Crit Care Med 45(2):241-252.
  51. C. Yang, U. Bork, S. Schölch, Y. Kulu, L. Kaderali, U.L. Bolstorff, C. Kahlert, J. Weitz, N.N. Rahbari, C. Reissfelder (2017). Postoperative course and prognostic value of circulating angiogenic cytokines after pancreatic cancer resection. Oncotarget 8(42):72315-72323.
  52. I.K. Stoeck, J.Y. Lee, K. Tabata, I. Romero-Brey, D. Paul, P. Schult, V. Lohmann, L. Kaderali, R. Bartenschlager (2017). Hepatitis C virus replication depends on endosomal cholesterol homeostasis. J. Virol. 92(1). pii: e01196-17.
  53. C. Lauber, S. Seitz, S. Mattei, A. Suh, J. Beck, J. Herstein, J. Bärold, W. Salzburger, L. Kaderali, J.A.G Briggs, R. Bartenschlager (2017). Deciphering the Origin and Evolution of Hepatitis B Viruses by Means of a Family of Non-enveloped Fish Viruses. Cell Host & Microbe 22(3):387-399.e6.
  54. C. Fuchs, S. Wauschkuhn, C. Scheer, M. Vollmer, K. Meissner, S.-O. Kuhn, K. Hahnenkamp, A. Morelli, M. Gründling, S. Rehberg (2017). Continuing chronic beta-blockade in the acute phase of severe sepsis and septic shock is associated with decreased mortality rates up to 90 days. Brit J Anaesthes 119(4):616-25.
  55. M. Rath, S.E. Jenssen, K. Schwefel, D. Kleimeier, C. Sperling, L. Kaderali, U. Felbor (2017). High-throughput sequencing of the entire genomic regions of CCM1/KRIT1, CCM2 and CCM3/PDCD10 to search for pathogenic deep-intronic splice mutations in cerebral cavernous malformations. Eur J Med Genet 60(9):479-84.
  56. J. Willemsen, O. Wicht, J.C. Wolanski, N. Baur, S. Bastian, D.A. Haas, P. Matula, B. Knapp, L. Meyniel-Schicklin, C. Wang, R. Bartenschlager, V. Lohmann, K. Rohr, H. Erfle, L. Kaderali, J. Marcotriagiano, A. Pichlmair, M. Binder (2017). Phosphorylation-Dependent Feedback Inhibition of RIG-I by DAPK1 Identified by Kinome-wide siRNA Screening. Mol Cell 65(3):403-15.
  57. C. Schneider, T. Oellerich, H.M. Baldauf, S.M. Schwarz, D. Thomas, R. Flick, H. Bohnenberger, L. Kaderali, L. Stegmann, A. Cremer, M. Martin, J. Lohmeier, M. Michaelis, V. Hornung, C. Schliemann, W.E. Berdel, W. Hartmann, E. Wardelmann, F. Comoglio, M.L. Hansmann, A.F. Yakunin, G. Geisslinger, P. Ströbel, N. Ferreiros, H. Serve, O.T. Keppler, J. Cinatl Jr. (2017). SAMHD1 is a biomarker for cytarabine response and a therapeutic target in acute myeloid leukemia. Nat. Med. 23(2):250-255.
  58. M. Keller, Y. Hu, A. Mesihovic, S. Fragkostefanakis, E. Schleiff, S. Simm (2017). Alternative splicing in tomato pollen in response to heat stress. DNA Res. 24(2):205-217.
  59. 2016

  60. K. Skoskiewicz-Malinowska, B. Noack, L. Kaderali, B. Malicka, K. Lorenz, K. Walczak, M.-T. Weber, M. Mendak-Ziolko, T. Hoffmann, M. Zietek, M. Walter, U. Kaczmarek, C. Hannig, M. Radwan-Oczko, M. Raedel (2016). Oral Health and Quality of Life in Old Age: A Cross-Sectional Pilot Project in Germany and Poland. Adv Clin Exp Med 25(5):951-59.
  61. M. Rath, S. Spiegler, N. Nath, K. Schwefel, N. Di Donato, J. Gerber, G.C. Korenke, Y. Hellenbroich, U. Hehr, S. Gross, U. Sure, B. Zoll, E. Gilberg, L. Kaderali, U. Felbor (2016). Constitutional de novo and postcygotic mutations in isolated cases of cerebral cavernous malformations. Mol Genet Genomic Med 5(1):21-27.
  62. S.C. Hamer, A. Becker, K. Rateitschak, A. Mohr, F.L. Ripoli, S. Hennecke, J. Junginger, M. Hewicker-Trautwein, B. Brenig, A. Ngezahoy, I. Nolte, H.M. Escobar (2016). Longitudinal Claudin Gene Expression Analyses in Canine Mammary Tissues and Thereof Derived Primary Cultures and Cell Lines. Int J Mol Sci17(10) pii:E1655.
  63. L. Kaderali, V. Thiel (2016). Systems biology of viral infection. Virus Res. 218:1.
  64. F. Bormann, M. Rodriguez-Paredes, S. Hagemann, H. Manchanda, B. Kristof, J. Gutekunst, G. Raddatz, R. Haas, L. Terstegen, H. Wenck, L. Kaderali, M. Winnefeld, F. Lyko (2016). Reduced DNA methylation patterning and transcriptional connectivity define human skin aging. Aging Cell 15(3):563-71.
  65. G. Vieyres, K. Welsch, G. Gerold, J. Gentzsch, S. Kahl, F. W. R. Vondran, L. Kaderali, T. Pietschmann (2016). ABHD5/CGI-58, the Chanarin-Dorfman syndrome protein, mobilises lipid stores for hepatitis C virus production. PLOS Pathogens 12(4):e1005568.
  66. SM Hill, LM Heiser, T Cokelaer, M Unger, NK Nesser, DE Carlin, Y Zhang, A Sokolov, EO Paull, CK Wong, K Graim, A Bivol, H Wang, F Zhu, B Afsar, LV Danilova, AV Favorov, WS Lee, D Taylor, CW Hu, BL Long, DP Noren, AJ Bisberg, HPN-DRESAM Consortium (B Afsari, R Al-Ouran, B Anton, T Arodz, OA Sichani, N Bagheri, N Berlow, AJ Bisberg, A Bivol, A Bohler, J Bonet, R Bonneau, G Budak, R Bunescu, M Cagla, B Cai, C Cai, DE Carlin, A Carlon, L Chen, MF Ciaccio, T Cokelaer, G Cooper, CJ Creighton, SM Daneshmand, A de la Fuente, B Di Camillo, LV Danilova, J Dutta-Moscato, K Emmett, C Evelo, MK Fassia, AV Favorov, EJ Fertig, JD Finkle, F Finotello, S Friend, X Gao, J Gao, J Garcia-Garcia, S Ghosh, A Giaretta, K Graim, JW Gray, R Großeholz, Y Guan, J Guinney, C Hafemeister, O Hahn, S Haider, T Hase, LM Heiser, SM Hill, J Hodgson, B Hoff, CH Hsu, CW Hu, Y Hu, X Huang, M Jalili, X Jiang, T Kacprowski, L Kaderali, M Kang, V Kannan, M Kellen, K Kikuchi, DC Kim, H Kitano, B Knapp, G Komatsoulis, H Koeppl, A Krämer, MB Kursa, M Kutmon, WS Lee, Y Li, X Liang, Z Liu, Y Liu, BL LongL, S Lu, X Lu, M Manfrini, MR Matos, D Meerzaman, GB Mills, W Min, S Mukherjee, CL Müller, RE Neapolitan, NK Nesser, DP Noren, T Norman, B Oliva, SO Opiyo, R Pal, A Palinkas, EO Paull, J Planas-Iglesias, D Poglayen, AA Qutub, J Saez-Rodriguez, F Sambo, T Sanavia, A Sharifi-Zarchi, J Slawek, A Sokolov, M Song, PT Spellman, A Streck, G Stolovitzky, S Strunz, JM Stuart, D Taylor, J Tegnér, K Thobe, GM Toffolo, E Trifoglio, M Unger, Q Wan, H Wang, L Welch, CK Wong, JJ Wu, AY Xue, R Yamanaka, C Yan, S Zairis, M Zengerling, H Zenil, S Zhang, Y Zhang, F Zhu, Z Zi.), GB Mills, JW Gray, M Kellen, T Norman, S Friend, AA Qutub, EJ Fertig, Y Guan, M Song, JM Stuart, PT Spellman, H Koeppl, G Stolovitzky, J Saez-Rodriguez, S Mukherjee. (2016). Inferring causal molecular networks: empirical assessment through a community-based effort. Nature Methods 13(4):310-8.
  67. K. Rateitschak, L. Kaderali, O. Wolkenhauer, R. Jaster (2016). Autocrine TGF-ß/ZEB/microRNA-200 signal transduction drives epithelial-mesenchymal transition: Kinetic models predict minimal drug dose to inhibit metastasis. Cell Signal 28(8):861-70.
  68. P. M. Perin, S. Haid, J. Doerrbecker, K. Schulze, C. Zeilinger, M. von Schaewen, B. Heller, K. Vercauteren, E. Luxenburger, Y. M. Baktash, F. W. Vondran, S. Speerstra, F. Mukhtarov, L. M. Schang, A. Kirschning, R. Müller, C. A. Guzman, L. Kaderali, G. Randall, P. Meuleman, A. Ploss, T. Pietschmann (2016). Flunarizine prevents hepatitis C virus membrane fusion in a genotype-dependent manner by targeting the potential fusion petptide within E1. Hepatology 36(1):49-62 doi: 10.1002/hep.28111.
  69. 2015

  70. C. Hölscher, F. Sonntag, K. Henrich, Q. Chen, J. Beneke, P. Matula, K. Rohr, L. Kaderali, N. Beil, H. Erfle, J. Kleinschmidt, M. Müller (2015). The SUMOylation pathway restricts gene transduction by adeno-associated viruses. PLOS Pathogens 11(12):e1005281.
  71. D. Clausznitzer, J. Harnisch, L. Kaderali (2015). Multi-scale model for hepatitis C viral load kinetics under treatment with direct acting antivirals. Virus Res 63(1):49-62.
  72. K. Hueging, R. Weller, M. Doepke, G. Vieyres, D. Todt, B. Wölk, F. Vondran, R. Geffers, C. Lauber, L. Kaderali, F. Penin, T. Pietschmann (2015). Several Human Liver Cell Expressed Apolipoproteins Complement HCV Virus Production with Varying Efficacy Conferring Differential Specific Infectivity to Released Viruses. PLoS One 10(7):e0134529.
  73. G. Gerold, F. Meissner, J. Brüning, K. Welsch, P. Perin, T. F. Baumert, F. W. Vondran, L. Kaderali, M. Mann, C. M. Rice, T. Pietschmann (2014). Quantitative proteomics identifies serum response factor binding protein 1 as host factor for hepatitis C virus entry. Cell reports 2(5):864-78.
  74. M. Matos, B. Knapp, L. Kaderali (2015). lpNet: a linear programming approach to reconstruct signal transduction networks. Bioinformatics 31(19):3231-3.
  75. C. Lauber, G. Vieyres, E. Terczynska-Dyla, A. Kusuma, R. Dijkman, H. H. Gad, H. Akthar, R. Geffers, F. Vondran. V. Thiel, L. Kaderali, T. Pietschmann, R. Hartmann (2015). Transcriptome analysis reveals a classical interferon signature induced by IFNL4 in primary cells. Genes and Immunity 16(6):414-21.
  76. B. Baier, A. Kern, L. Kaderali, B. Bis, D. Koschel, A. Rolle (2015). Retrospective survival analysis of 237 consecutive patients with multiple metastases from advanced renal cell carcinoma exclusively resected by 1318 nm laser. European Journal of Cardio-thoracic Surgery 21(2):211-7.
  77. C. Lauber, S. Kazem, A. Kravchenko, M. Feltkamp, A. Gorbalenya (2015). Interspecific adaptation by binary choice at de novo polyomavirus T antigen site through accelerated codon-constrained Val-Ala toggling within an intrinsically disordered region, Nucleic Acids Research 43(10):4800-13.
  78. S. Amberkar, L. Kaderali (2015). An integrative approach for a network based meta-analysis of viral RNAi screens. BMC Algorithms for Molecular Biology 10:6.
  79. L. Mailly, F. Xiao, J. Lupberger, G. K. Wilson, P. Aubert, F. H. T. Duong, D. Calabrese, C. Leboeuf, I. Fofana, C. Thumann, S. Bandiera, M. Lütgehetmann, T. Volz, C. Davis, H. J. Harris, C. Mee, E. Girardi, B. Chane-Woon-Ming, M. Ericsson, N. Fletcher, R. Bartenschlager, P. Pessaux, K. Vercauteren, P. Meuleman, P. Villa, L. Kaderali, S. Pfeffer, M. H. Heim, M. Neunlist, M. B. Zeisel, M. Dandri, J. A. McKeating, E. Robinet, T. F. Baumert (2015). Clearance of persistent hepatitis C virus infection using a monochlonal antibody specific for thight junction protein claudin-1. Nature Biotechnology 33(5):549-54.
  80. S. Boutin, Y. Graeber, M. Weitnauer, M. Stahl, D. Clausnitzer, L. Kaderali, G. Einarsson, M. M. Tunney, J. S. Elborn, M. Mall, A. Dalpke (2015). Comparison of microbiomes from different niches of upper and lower airways in children and adolescents with cystic fibrosis, PLoS One 10(1):e0116029.
  81. M. Poenisch, H. Blankenburg, A. Ruggieri, I. Rebhan, P. Metz, D. Rupp, K. Diederich, L. Kaderali, F. Domingues, M. Albrecht, V. Lohmann, H. Erfle, R. Bartenschlager (2014). Identification of HNRNPK as regulator of hepatitis C virus particle production. PLoS Pathogens 11(1):e1004578.
  82. 2014

  83. F. Hentzschel, C. Hammerschmidt-Kamper, K. Börner, K. Heiss, B. Knapp, J. M. Sattler, L. Kaderali, M. Castoldi, J. G. Bindman, Y. Malato, H. Willenbring, A.-K. Mueller, D. Grimm (2014). AAV8-mediated in vivo overexpression of miR-155 enhances the protective capacity of genetically-attenuated malaral parasites, Moleculer Therapy 22(12):2130-41.
  84. D. Bankwitz, G. Vieyres, K. Hueging, J. Bitzegeio, M. Doepke, P. Chhatwal, S. Haid, M. Catanese, M. Zeisel, A. Nicosia, T. Baumert, L. Kaderali, T. Pietschmann (2014). Role of the hypervariable region 1 (HVR1) for the interplay of hepatitis C virus with entry factors and lipoproteins. Journal of Virology 88(21):12644-55.
  85. N. A. Kiani, L. Kaderali (2014). Dynamic Probabilistic Threshold Networks to Infer Signaling Pathways from Time-Course Perturbation Data. BMC Bioinformatics 15:250.
  86. C. Stephan, H.-M. Baldauf, J. Barry, F. Giordano, C. Bartholomä, A. Haberl, M. Bickel, M. Schmidt, S. Laufs, L. Kaderali, O. Keppler (2014). Impact of raltegravir on HIV-1 RNA and DNA species following initiation of antiretroviral therapy in treatment-naïve patients. J of Antimicrob Chemother 69(10):2809-18.
  87. C. Engeland, N. Brown, K. Boerner, M. Schümann, E. Krause, L. Kaderali, G. Müller, H.-G. Kraeusslich (2014). Proteome Analysis of the HIV-1 Gag Interactome. Virology 460-461:194-206.
  88. J. Doerrbecker, M. Friesland, N. Riebesehl, C. Ginkel, P. Behrendt, R. Brown, S. Ciesek, H. Wedemeyer, C. Sarrazin, L. Kaderali, T. Pietschmann, E. Steinmann (2014). Incorporation of primary patient-derived glycoproteins into authentic infectious hepatitis C virus particles. Hepatology 60(2):508-20.
  89. A. Eskova, B. Knapp, D. Matelska, S. Reusing, A. Arjonen, T. Lisauskas, R. Pepperkok, R. Russell, R. Eils, J. Ivaska, L. Kaderali, H. Erfle, V. Starkuviene (2014). RNAi Screen Identifies KIF15 as a Novel Regulator of Integrin Endocytic Trafficking. J. Cell Science 127(Pt11):2433-47.
  90. N. V. Ivanisenko, E. L. Mishchenko, I. R. Akberdin, P. S. Demenkov, V. A. Likhoshvai, K. Kozlov, D. Todorov, V. V. Gursky, M. G. Samsonova, A. M. Samsonov, D. Clausznitzer, L. Kaderali, N. A. Kolchanov, V. A. Ivanisenko (2014). A new stochastic model for subgenomic hepatitis C virus replication considers drug resistant mutants. PLoS One 9(3):e91502.
  91. K. Hueging, M. Doepke, G. Vieyres, D. Bankwitz, A. Frentzen, J. Doerrbecker, F. Gumz, S. Haid, B. Wölk, L. Kaderali, T. Pietschmann (2013). Apolipoprotein E co-determines tissue-tropism of hepatitis C virus and it is crucial for viral cell-to-cell transmission by contributing to a post-envelopment step of assembly. Journal of Virology 88(3):1433-46.
  92. N. Levtov, S. Amberkar, Z. Frenkel, L. Kaderali, Z. Volkovich (2014). Detecting Non-Uniform Clusters in Large-Scale Interaction Graphs. J Comput Biol 21(2):173-83, doi: 10.1089/cmb.2013.0095.
  93. A. Frentzen, A. Kusuma, E. Guerlevik, K. Hueging, S. Knocke, C. Ginkel, R. J. Brown, M. Heim, M. T. Dill, A. Kröger, U. Kalinke, L. Kaderali, F. Kuehnel, T. Pietschmann (2014). Cell entry, efficient RNA replication, and production of infectious hepatitis C virus progeny in mouse liver-derived cells. Hepatology 59(1):78-88, doi: 10.1002/hep.26626.
  94. S. Haid, C. Grethe, M. Dill, M. Heim, L. Kaderali, T. Pietschmann (2014). Isolate-dependent use of Claudins for cell entry by hepatitis C virus. Hepatology 59(1):24-34, doi: 10.1002/hep.26567.
  95. 2013

  96. G. Raddatz, S. Hagemann, D. Aran, J. Söhle, P. Kulkarni, L. Kaderali, A. Hellmann, M. Winnefeld, F. Lyko (2013). Aging is associated with highly defined epigenetic changes in the human epidermis. Epigenetics & Chromatin 6(1):36, doi: 10.1186/1756-8935-6-36.
  97. E. Steinemann, J. Doerrbecker, M. Friesland, N. Riebesehl, C. Ginkel, J. Gentzsch, C. Lauber, R. Brown, A. Frentzen, T. Pietschmann (2013). Characterization of hepatitis C virus intra- and inter-genotypic chimeras reveals a role of the glycoproteins in virus envelopment. Journal of Virology 87(24):13297-306, doi: 10.1128/JVI.01708-13.
  98. S. Eisenreich, K. Abou-El-Ardat, K. Szafranski, J.A. Campos-Valenzuela, A. Rump, J.M. Nigro, R. Bjerkvig, E.M. Gerlach, K. Hackmann, E. Schröck, D. Krex, L. Kaderali, G. Schackert, M. Platzer, B. Klink (2013). Novel CIC Point Mutations and an Exon-Spanning, Homozygous Deletion Identified in Oligodendroglial Tumors by a Comprehensive Genomic Approach Including Transcriptome Sequencing. PLoS One 8(9):e76623, doi:10.1371/journal.pone.0076623.
  99. M. Binder*, N. Sulaimanov*, D. Clausznitzer, M. Schulze, C. M. Hueber, S. Lenz, J. Schloeder, M. Trippler, R. Bartenschlager, V. Lohmann, L. Kaderali (2013). Replication Vesicles are Load- and Choke-Points in the Hepatitis C Virus Lifecycle. PLoS Pathogens 9(8):e1003561, doi:10.1371/journal.ppat.1003561.
  100. B. Knapp, L. Kaderali (2013). Reconstruction of Cellular Signal Transduction Networks using Perturbation Assays and Linear Programming. PLoS One 8(7):e69220, doi:10.1371/journal.pone.0069220.
  101. S. Amberkar, N. Kiani, R. Bartenschlager, G. Alvisi, L. Kaderali (2013). High-throughput RNA interference screens integrative analysis: Towards a comprehensive understanding of the virus-host interplay. World J Virol. 2(2):18-31, doi: 10.5501/wjv.v2.i2.18.
  102. J. Gentzsch, C. Brohm, E. Steinmann, M. Friesland, N. Menzel, G. Vieyres, P. Perin, A. Frentzen, L. Kaderali, T. Pietschmann (2013). Hepatitis C Virus p7 is Critical for Capsid Assembly and Envelopment. PLoS Pathogens 9(5):e1003355, doi:10.1371/journal.ppat.1003355.
  103. B. Klink, H. Miletic, D. Stieber, P. C. Huszthy, J. A. Campos Valenzuela, J. Balss, J. Wang, M. Schubert, P. O. Sakariassen, T. Sundstrom, A. Torsvik, M. Aarhus, R. Mahesparan, A. von Deimling, L. Kaderali, S. P. Niclou, E. Schröck, R. Bjerkvig, J. M. Nigro (2013). A novel, diffusely infilrative xenograft model of human anaplastic oligodendroglioma with mutations in FUBP1, CIC, and IDH1. PLoS One 8(3):e59773, doi:10.1371/journal.pone.0059773.
  104. Z. M. Frenkel, S. Amberkar, L. Kaderali, Z. Volkovich (2013). Repeated Bisections approach for local clustering of PPINs. Journal of Modern Mathematics Frontier (JMMF) 2(1):19-24.
  105. U. Maulik, A. Mukhopadhyay, M. Bhattacharyya, L. Kaderali, B. Brors, S. Bandyopadhyay, R. Eils (2013). Mining Quasi-Bicliques from HIV-1--Human Protein Interaction Network: A Multiobjective Biclustering Approach. IEEE/ACM Trans Comput Biol Bioinform 10(2):423-35,
  106. 2012

  107. A. Serva, B. Knapp, Y.-T. Tsai, C. Claas, T. Lisauskas, P. Matula, N. Harder, L. Kaderali, K. Rohr, H. Erfle, R. Eils, V. Braga, V. Starkuviene (2012). miR-17-5p regulates endocytic trafficking through targeting TBC1D2/Armus. PLoS One 7(12):e52555, doi:10.1371/journal.pone.0052555.
  108. H. Poschke, M. Dees, M. Chang, S. Amberkar, L. Kaderali, R. Rothstein and B. Luke (2012). Rif2 promotes a telomere fold-back structure through Rpd3L recruitment in budding yeast. PLoS Genetics 8(9):e1002960.
  109. A. Ruggieri, E. Dazert, P. Metz, S. Hofmann, J. P. Bergeest, J. Mazur, P. Bankhead, M. S. Hiet, S. Kallis S, G. Alvisi, C. E. Samuel, V. Lohmann, L. Kaderali, K. Rohr, M. Frese, G. Stoecklin, R. Bartenschlager (2012). Dynamic oscillation of translation and stress granule formation mark the cellular response to virus infection. Cell Host & Microbe 12:71-85.
  110. N. Menzel, W. Fischl, K. Hueging, D. Bankwitz, A. Frentzen, S. Haid, J. Gentzsch, L. Kaderali, R. Bartenschlager, T. Pietschmann (2012). MAP-kinase regulated cytosolic phospholipase A2 activity is essential for production of infectious hepatitis C virus particles. PLoS Pathogens 8(7):e1002829.
  111. P. Metz, E. Dazert, A. Ruggieri, J. Mazur, L. Kaderali, A. Kaul, U. Zeuge, M. Trippler, V. Lohmann, M. Binder, M. Freese, R. Bartenschlager (2012). Identification of type I and type II interferon-induced effectors controlling hepatitis C virus replication. Hepatology 56(6):2082-93, doi:10.1002/hep.25908.
  112. M. Böck, S. Ogishima, H. Tanaka, S. Kramer, L. Kaderali (2012). Hub-Centered Gene Network Reconstruction using Automatic Relevance Determination. PLoS ONE 7(5): e35077. doi:10.1371/journal.pone.0035077.
  113. N. Naseabadi, A. Dehnokhalaji, N. A. Kiani, P. J. Korhonen, J. Wallenius (2011). Resource allocation for performance improvement. Ann Oper Res 196(1), 459-468, doi:10.1007/s10479-011-1016-y.
  114. 2011

  115. B. Knapp, I. Rebhan, A. Kumar, P. Matula, N. A. Kiani, M. Binder, H. Erfle, K. Rohr, R. Eils, R. Bartenschlager, L. Kaderali (2011). Normalizing for Individual Cell Population Context in the Analysis of high-content Cellular Screens.BMC Bioinformatics 12:485.
  116. D. Clausznitzer, N. Sulaimanov, M. Binder, V. Lohmann, R. Bartenschlager, L. Kaderali (2011). Systembiologie der Hepatitis C-Virus-Wirts-Interaktionen. Laborwelt 6:13-15.
  117. J. Mazur, L. Kaderali (2011). Bayesian Experimental Design for the Inference of Gene Regulatory Networks. In: Proceedings of the Fifth International Workshop on Machine Learning in Systems Biology, Vienna, Austria, July 20-21, 2011. Stefan Kramer and Neil Lawrence (Eds.), 54-58.
  118. M. Binder, F. Eberle, S. Seitz, N. Mücke, C. M. Hüber, N. Kiani, L. Kaderali, V. Lohmann, A. Dalpke, R. Bartenschlager (2011). Molecular mechanism of signal perception and integration by the innate immune sensor retinoic acid inducible gene-I (RIG-I).J Biol Chem. 286:27278-87.
  119. J. Gentzsch, B. Hinkelmann, L. Kaderali, H. Irschik, R. Jansen, F. Sasse, R. Frank, T. Pietschmann (2011). Hepatitis C virus complete life cycle screen for identification of small molecules with pro- or antiviral activity.Antiviral Research 89(2):136-48.
  120. S. Reiss, I. Rebhan, P. Backes, I. Romero-Brey, H. Erfle, P. Matula, L. Kaderali, M. Pönisch, H. Blankenburg, M.-S. Hiet, T. Longerich, S. Diehl, F. Ramirez, T. Balla, K. Rohr, A. Kaul, S. Bühler, R. Pepperkok, T. Lengauer, M. Albrecht, R. Eils, P. Schirmacher, V. Lohmann, R. Bartenschlager (2011) Recruitment and activation of a lipid kinase by NS5A of the hepatitis C virus is essential for integrity of the membranous replication compartment. Cell Host & Microbe 9(1):32-45.
  121. 2010

  122. A, Suratanee, I. Rebhan, P. Matula, A. Kumar, L. Kaderali, K. Rohr, R. Bartenschlager, R. Eils, R. König (2010). Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images. Bioinformatics 26:i653-i658, doi:10.1093/bioinformatics/btq398.
  123. J.-M. Löhr, R. Faissner, D. Koczan, P. Bewerunge, C. Bassi, B. Brors, R. Eils, L. Frulloni, A. Funk, W. Halangk, R. Jesenofsky, L. Kaderali, J. Kleef, B. Krüger, M. M. Lerch, R. Lösel, M. Magnani, M. Neumaier, S. Nittka, M. Sahin-Toth, J. Sänger, S. Serafini, M. Schnölzer, H.-J. Thierse, S. Wandschneider, G. Zamboni, G. Klöppel (2010). Autoantibodies Against the Exocrine Pancreas in Autoimmune Pancreatitis: Gene and Protein Expression Profiling and Immunoassays Identify Pancreatic Enzymes as a Major Target of the Inflammatory Process. Am. J. Gastroenerology 105(9):2060-71.
  124. J. H. Schulte, B. Schowe, P. Mestdagh, L. Kaderali, P. Kalaghatgi, S. Schlierf, B. Brockmeyer, K. Pajtler, T. Thor, K. de Preter, F. Spelemen, K. Morik, A. Eggert, J. Vandesompele, A. Schramm (2010). Accurate Prediction of Neuroblastoma Outcome based on miRNA Expression Profiles. International Journal of Cancer, 127(10):2374-85.
  125. A. Oberthuer, B. Hero, F. Berthold, D. Juraeva, A. Faldum, Y. Kahlert, S. Asgharzadeh, R. Seeger, P. Scaruffi, G. P. Tonini, I. Janoueix-Lerosey, O. Delattre, G. Schleiermacher, J. Vandesompele, J. Vermeulen, F. Speleman, R. Noguera, M. Piqueras, J. Benard, A. Valent, S. Avigad, I. Yaniv, A. Weber, H. Christiansen, R. Grundy, K. Schardt, M. Schwab, R. Eils, P. Warnat, L. Kaderali, T. Simon, B. DeCarolis, J. Theissen, F. Westermann, B. Brors, M. Fischer (2010). The Prognostic Impact of Gene Expression-Based Classification for Low and Intermediate Risk Neuroblastoma. Journal of Clinical Oncology 28(21):3506-15.
  126. A. D. Ebert, M. Laussmann, S. Wegehingel, L. Kaderali, H. Erfle, J. Reichert, J. Lechner, H.-D. Beer, R. Pepperkok, W. Nickel (2010). Tec-Kinase-mediated Phosphorylation of Fibroblast Growth Factor 2 is Essential for Unconventional Secretion. Traffic, 11(6):813-26.
  127. K. Börner, J. Hermle, C. Sommer, N. P. Brown, B. Knapp, B. Glass, J. Kunkel, G. Torralba, J. Reymann, N. Beil, J. Beneke, R. Pepperkok, R. Schneider, T. Ludwig, M. Hausmann, F. Hamprecht, H. Erfle, L. Kaderali, H.-G. Kräusslich, M. J. Lehmann (2010) From experimental setup to bioinformatics: An RNAi screening platform to identify host factors and potential cellular networks involved in HIV-1 replication, Biotechnology Journal, 5(1), 39-49.
  128. 2009

  129. J. Mazur, D. Ritter, G. Reinelt, L. Kaderali (2009). Reconstructing Nonlinear Dynamic Models of Gene Regulation using Stochastic Sampling. BMC Bioinformatics 10:448.
  130. S. Geuenich, L. Kaderali, I. Allespach, S. Sertel, O. T. Keppler (2009). Biological Signature Characterisitics of Primary Isolates from HIV-1 Group O in the ex vivo Human Tonsil Histoculture. Journal of Virology, 83(20), 10494-10503, doi:10.1128/JVI.00928-09.
  131. L. Kaderali, E. Dazert, U. Zeuge, M. Frese, R. Bartenschlager (2009). Recontructing Signaling Pathways from RNAi Data using Probabilistic Boolean Threshold Networks. Bioinformatics, 25(17), 2229-2235, doi:10.1093/bioinformatics/btp375.
  132. A. Schramm, I. Mierswa, L. Kaderali, K. Morik, A. Eggert, J. H. Schulte (2009). Reanalysis of Neuroblastoma Expression Profiling Data using improved Methodology and extended Follow-Up increases Validity of Outcome Prediction. Cancer Letters, 282(1):55-62, doi:10.1016/j.canlet.2009.02.052.
  133. N. Rieber, B. Knapp, R. Eils, L. Kaderali (2009). RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens. Bioinformatics, 25, 678-679, doi:10.1093/bioinformatics/btp014.
  134. N. Radde, L. Kaderali (2009). Inference of an Oscillating Model for the Yeast Cell Cylce. Discrete Applied Mathematics 157, 2285-2295, doi:10.1016/j.dam.2008.06.036.
  135. 2008 and before

  136. A. Oberthür*, L. Kaderali*, Y. Kahlert, B. Hero, F. Westermann, F. Berthold, B. Brors, R. Eils, M. Fischer (2008). Sub-classification and individual survival time prediction from gene-expression data of neuroblastoma patients using CASPAR. Clinical Cancer Research, 14(20):6590-6601.
  137. M. Zapatka, L. Kaderali (2007). Statistische Analyse von Daten klinischer Studien. GynSpectrum 3, 18-19.
  138. L. Kaderali (2007). Individualized Predictions of Survival Time Distributions from Gene Expression Data using a Bayesian MCMC Approach. S. Hochreiter and R. Wagner (Eds.): BIRD 2007, LNBI Lecture Notes in Bioinformatics 4414, 77-89.
  139. N. Radde, L. Kaderali (2007). Bayesian Inference of Gene Regulatory Networks using Gene Expression Time Series Data. S. Hochreiter and R. Wagner (EDS): BIRD 2007, LNBI Lecture Notes in Bioinformatics, 4414, 1-15.
  140. A. Schramm, J. Vandesompele, J. H. Schulte, S. Dreesmann, L. Kaderali, B. Brors, R. Eils, F. Speleman, A. Eggert (2007). Translating Expression Profiling into a Clinically Feasible Test to Predict Neuroblastoma Outcome. Clinical Cancer Research 13(5), 1459-1465.
  141. L. Kaderali, T. Zander, U. Faigle, J. Wolf, J. L. Schultze, R. Schrader (2006). CASPAR: A Hierarchical Bayesian Approach to predict Survival Times in Cancer from Gene Expression Data. Bioinformatics 22, 1495-1502.
  142. M. Leber, L. Kaderali, A. Schönhuth, R. Schrader (2005). A fractional programming approach to efficient DNA melting temperature calculation. Bioinformatics 21, 2375-2382.
  143. L. Kaderali, A. Deshpande, J. P. Nolan, P. S. White (2003). Primer-design for multiplexed genotyping. Nucleic Acids Research 31, 1796-1802.
  144. L. D. Green, H. Cai, D. C. Torney, D. J. Wood, F. J. Uribe-Romeo, L. Kaderali, J. P. Nolan, P. S. White (2002). High-throughput SNP scoring with GAMMArrays: genomic analysis using multiplexed microsphere assays. In: Bornshop, Darryl and others (editors), Proc. SPIE, Volume 4626, 308-315.
  145. L. Kaderali, A. Schliep (2002). Selecting signature oligonucleotides to identify organisms using DNA arrays. Bioinformatics 18, 1340-1349.
  146. L. Kaderali, A. Schliep (2001). A new Algorithm for accelerating Pair-Wise Computations of Melting Temperature. Electronic Notes in Discrete Mathematics, 8, 46-49.

*) Joint first or joint last authorship.

Books and Book contributions

  1. N. Kiani, L. Kaderali (2013). Systems Virology. In: Encyclopedia of Systems Biology, Edited by Werner Dubitzky, Olaf Wolkenhauer, Kwang-Hyun Cho, Hiroki Yokota. Springer Verlag, 2013.
  2. J. Mazur, L. Kaderali (2013). The Importance and Challenges of Bayesian Parameter Learning in Systems Biology. In: Model Based Parameter Estimation: Theory and Applications, H. G. Bock, T. Carraro, W. Jäger, S. Körkel, R. Rannacher, J. P. Schlöder (Eds.), Contributions in Mathematical and Computational Sciences, Vol. 4, Springer Verlag, Heidelberg.
  3. J. Mazur, L. Kaderali (2012). The Relevance of Bayesian Experimental Design for Modeling in Systems Biology. In: Computational Intelligence. Alexandru Floares (Ed.), Computer Science, Technology and Applications, Nova, pp. 69-74.
  4. B. Knapp, L. Kaderali (2012). Single-Cell Analysis of High-Content, High-Throughput Cellular Assays. In: Introduction to sequence and genome analysis, iConcept Press.
  5. N. Radde, L. Kaderali (2010). A Bayes regularized ODE Model for the Inference of Gene Regulatory Networks. In: Das, Carayea, Hsu, Welch, Handbook of Research: Computation Methodologies in Gene Regulatory Networks. IGI-Global.
  6. L. Kaderali, N. Radde (2008). Inferring Gene Regulatory Networks from Expression Data. In: A. Kelemen, A. Abraham, Y. Chen (Editors), Computational Intelligence in Bioinformatics. Studies in Computational Intelligence 94, Springer-Verlag, Heidelberg.
  7. L. Kaderali (2007). Primer Design for Multiplexed Genotyping. In: A. Yuryev (Editor), PCR Primer Design. Methods in Molecular Biology, Humana Press, Totowa.
  8. L. Kaderali (2006). A Hierarchical Bayesian Approach to Regression and its Application to Predicting Survival Times in Cancer. Shaker Verlag, Aachen.

Other Publications

  1. M. Vollmer, D. Bläsing, J.E. Reiser, M. Nisser, A. Buder (2020). Simultaneous physiological measurements with five devices at different cognitive and physical loads (version 1.0.0). *PhysioNet*,
  2. M. Vollmer, D. Bläsing, L. Kaderali (2019). Alignment of Multi-Sensored Data: Adjustment of Sampling Frequencies and Time Shifts. Computing in Cardiology (CinC), Vol 46.
  3. M. Vollmer, C.F. Luz, P. Sodmann, B. Sinha, S.-O. Kuhn (2019). Time-specific Metalearners for the Early Prediction of Sepsis. Computing in Cardiology (CinC) Vol 46.
  4. M. Vollmer (2019). HRVTool - an Open-Source Matlab Toolbox for Analyzing Heart Rate Variability. Computing in Cardiology (CinC), Vol 46.
  5. W. Poller. M. Gast, S. Nakagawa, J. Haas, N. Nath, C. Mueller, T. Hirose, U. Rauch, C. Skurk, B. Rauch, S. Blankenberg, A. Kuss, B. Meder, U. Landmesser, T. Zeller (2018) Long noncoding RNA NEAT1 controls ROS production in macrophages and is suppressed in post-myocardial infarction patients. European Heart Journal 39, Issue suppl_1, ehy563.P3198.
  6. M. Vollmer M, P. Sodmann, L. Caanitz, N. Nath, L. Kaderali (2017). Can supervised learning be used to classify cardiac rhythms? Computing in Cardiology 44:347-176.
  7. M. Vollmer (2017). Noise resistance of several top-scored heart beat detectors. Computing in Cardiology 44:182-178
  8. M. Vollmer (2017), Arrhythmia classification in long-term data using relative RR intervals. Computing in Cardiology 44:213-185
  9. A. Oberthuer, B. Hero B, D. Juraeva, A. Faldum, Y. Kahlert, S. Asgharzadeh, R. Seeger, P. Scaruffi, G. P. Tonini, I. Janoueix-Lerosey, O. Delattre, G. Schleiermacher, J. Vandesompele,J. Vermeulen, F. Speleman, R. Noguera, M. Piqueras M, J. Benard, A. Valent, S. Avigad, I. Yaniv, A. Weber, H. Christiansen, R. G. Grundy, K. Schardt, M. Schwab, R. Eils, P. Warnat, L. Kaderali, T. Simon, B. DeCarolis, J. Theissen, F. Westermann, B. Brors, F. Berthold, M. Fischer (2010). Gene expression-based classification improves risk estimation of neuroblastoma patients. Klinische Pädiatrie 222(3):221-221.
  10. B. Knapp, P. Matula, L. Kaderali, K. Rohr, H. Erfle, V. Starkuviene, C. Claas C (2009). Regulatory elements specific for the secretion of procollagen I. European Journal of Cell Biology 88 Suppl. 59, p. 12.
  11. L. Kaderali, A. Gösling, P. S. White, R. Schrader (2007). Automated Design of Multiplexed Polymerase Chain Reaction Experiments with MPXprimer. Technical Report, Cologne University Bioinformatics Center, University of Cologne (pdf).
  12. L. Kaderali (2005). Vorhersage des Überlebens bei Tumorpatienten. Jahresbericht "Kooperative Informationsverarbeitung an der Universität zu Köln" für das Jahr 2005.
  13. L. Kaderali (2003). Neural Network Feature Selection in Complex Trait Analysis. Technical Report, ZAIK, University of Cologne.
  14. L. Kaderali (2001). Selecting target specific Probes for DNA Arrays. Diploma Thesis, University of Cologne.


Available on request: lars.kaderali{at}

  1. MCMCpbtn - Network reconstruction from intervention data using probabilistic Boolean threshold networks
  2. RNAither - Statistical Analysis of High-Throughput RNAi screens
  3. CASPAR - Survival Time Prediction in Cancer from Microarray Gene Expression Data
  4. MPXprimer - Multiplex PCR Primer Design
  5. SBEprimer - Primer Design for Multiplexed Genotyping
  6. FracTherm - Melting Temperature Calculation for Oligonucleotides
  7. ProbeSel - Probe Design for DNA Microarrays

Dissertations / PhD Theses

  1. J. K. Barry (2017), Mathematical Modeling of the HIV Lifecycle: Identifying optimal treatment strategies. PhD thesis, Medical Faculty, University of Greifswald.
  2. J. Campos Valenzuela (2017), Classification of Glioblastoma Multiforme Patients based on an integrative multi-layer finite mixture model system. PhD Thesis, Medical Faculty, TU Dresden.
  3. S. Amberkar (2014), Integrative bioinformatics analysis of genome-wide RNAi screens. PhD Thesis, Faculty of Biology, University of Heidelberg.
  4. N. Sulaimanov (2012), Mathematical Modeling of Hepatitis C Virus Replication, PhD Thesis, Faculty of Mathematics and Natural Sciences, University of Heidelberg
  5. G. Suryavanshi (2012), Mathematical model to uncover the role of receptor ubiquitination in dose dependent EGFR trafficking., PhD Thesis, Faculty of Biology, University of Heidelberg.
  6. J. Mazur (2012), Bayesian Inference of Gene Regulatory Networks: From Paramneter Estimation to Experimental Design., PhD Thesis, Faculty of Mathematics and Natural Sciences, University of Heidelberg.
  7. B. Knapp (2011), RNA Interference Data: From a Statistical Analysis to Network Inference. PhD Thesis, Faculty of Mathematica and Natural Sciences, University of Heidelberg

Diploma / Bachelor / Master Theses

  1. J. Oldenburg (2019), Optimierung eines künstlichen neuronalen Netzes zur Vorhersage einer nichtalkoholischen Fettleber mit Hilfe von KEGG-Pathways, Master Thesis, Biomathematics, University of Greifswald.
  2. E. Brammen (2019), Integration von KEGG Daten in neuronale Netze zur Identifikation relevanter KEGG Pathways für die Blutdruckvorhersage, Master Thesis, Biomathematics, University of Greifswald.
  3. D. Ovtchinnikov (2019), Gehirngewebeklassifikation mmithilfe von maschinellem Lernen und intraoperativer Infrarotspektroskopie, Bachelor Thesis, Biomathematics, University of Greifswald.
  4. A. Wilsdorf (2019), Anwendung Bayes'scher Netze zur Identifikation von Risikofaktoren in epidemiologischen Studien, Master thesis, Biomathematics, University of Greifswald.
  5. A. Haack (2018), Vergleich von bioinformatischen Methoden zur Vorhersage von B-Zell-Epitopen am Beispiel von Staphylococcus Aureus-Proteinen, Bachelor Thesis, Biomathematics, University of Greifswald.
  6. A.-M. Schuknecht (2018), Anwendung maschineller Lernverfahren zur Diagnostik der Parodontitis mit Mulit-OMICs-Daten, Bachelor Thesis, Biomathematics, University of Greifswald.
  7. M.-C. Cwikla (2018), Classification of Thyroid dysfunction using Multinomial Probit Bayesian Additive Regression Trees, Bachelor Thesis, Biomathematics, University of Greifswald.
  8. C. Bruckmann (2017), Eine Analyse von Genexpressionsdaten mittels maschinellen Lernens zur Untersuchung der Krankheit Fettleber unter Ausschluss von alkoholbedingten Ursachen. Bachelor Thesis, Biomathematics, University of Greifswald.
  9. R. Wagner (2017), Multilevel weightes support vector machine for high dimensional data sets, Bachelor Thesis, Biomathematics, University of Greifswald.
  10. A. Weihs (2017), Automated recognition of inherited platelet disorders from digital pictures of blood smears, Bachelor Thesis, Biomathematics, University of Greifswald.
  11. P. Bachmann (2017), Lipidom-Daten als Biomarker für Alzheimer, Multiple Sklerose und leichte kognitive Beeinträchtigung, Bachelor Thesis, Biomathematics, University of Greifswald.
  12. J. Harnisch (2015), Multi-scale model for hepatitis C viral load kinetics under treatment with direct acting antivirals, Master Thesis, Biomathematics, University of Greifswald.
  13. L. Heinrich (2013), Kopplung des Replikationsmodells des Hepatitis-C-Virus mit der Immunantwort. Diploma Thesis (FH), Hochschule Zittau-Görlitz.
  14. S. Neumann (2013), Modeling of EGFR trafficking. Diploma Thesis, University of Heidelberg.
  15. C. Gallo-Lopez (2012), Mathematical Model of Ligand-Dose-Dependent Epidermal Growth Factor Receptor Trafficking and Signaling. Master Thesis, University of Evry-Val-d'Essonne.
  16. S. Faassen (2012), Image-processing pipeline for RNAi microscopy data. Diploma Thesis (FH).
  17. B. Yadav (2011), Modeling the IL-6 stimulated Jak/Stat pathway in Fibroblasts and Keratinocytes. Master thesis.
  18. D. Mugahid (2010), Predicting Cancer Survival from aCGH and Gene Expression Data. Master Thesis, Faculty of Biosciences, University of Heideleberg (with Prof. Dr. U. Kummer).
  19. T. Stumpf (2009), Considerations on Clustering RNAi high throughput screening data assuming a Gamma Distribution. Diploma Thesis, Biology, University of Heidelberg (with Prof. Dr. R. Eils).
  20. M. Böck (2008), Bayesian learning of Boolean regulatory networks derived from expression data. Diploma Thesis, Bioinformatics, Technical University of Munich (with Prof. Dr. S. Kramer).
  21. D. Ritter (2008), Machine Network Learning - Bayesian Inference of Gene Regulatory Networks with Differential Equations using Stochastic Simulation. Master Thesis, Faculty of Mathematics and Computer Science, University of Heidelberg (with Prof. Dr. G. Reinelt).
  22. N. Rieber (2008), An automated pipeline for the statistical analysis of high-throughput RNAi screens. Master Thesis, Faculty of Biosciences, University of Heidelberg (with Prof. Dr. R. Eils).
  23. B. Heinzel (2008), Ein Markov-Chain-Monte-Carlo Ansatz zur Klassifikation und Überlebenszeitvorhersage von Krebspatienten auf Basis von Genexpressionsdaten. Diplomarbeit, FB Bioinformatik, Fachhochschule Weihenstephan (with Prof. Haubold and Prof. Lesske).
  24. G. Klingbeil (2007), Inference of Biochemical Networks using a Hybrid Approach. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  25. C. Giesselbach (2005), Ein Färbungsproblem in partitionierten Graphen. Diplomarbeit, Mathematisches Institut, Universität zu Köln (with Prof. Dr. R. Schrader).
  26. M. Endriga (2004), Analysis of Complex Genetic Traits. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  27. C. Kolarik (2004), Development of Clustering Software for SNP Genotyping Data Analysis. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  28. T.-C. Deng (2004), Development of Clustering Software for SNP Genotyping Data Analysis. Comparison of two clustering methods. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  29. M. Leber (2003), Design of a Fractional Programming Algorithm for DNA Melting Temperature Determination. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  30. V. Singh (2003), Probeprep: A Graphical User Interface for the Software for Microarray Probe Design. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.
  31. A. Gösling (2003), MPCR-Primer. Ein Programm zum selektiven Primer-Design für Multiplex-Polymerase-Kettenreaktionen. Thesis, CUBIC Graduate Course in Bioinformatics, University of Cologne.