Publications_GRK

Current publications related to GRK 1657

 
  • Elastase-like Activity Is Dominant to Chymotrypsin-like Activity in 20S Proteasome's β5 Catalytic Subunit. Bensinger D, Neumann T, Scholz C, Voss C, Knorr S, Kuckelkorn U, Hamacher K, Kloetzel PM, Schmidt B.ACS Chem Biol. 2016 Jul 15;11(7):1800-4. doi: 10.1021/acschembio.6b00023.
  • Efficient computation and statistical assessment of transfer entropy. Boba P, Bollmann D, Schoepe D, Wester N, Wiesel J, Hamacher K. Frontiers in Physics 3(2015)10
  • DOCKTITE-a highly versatile step-by-step workflow for covalent docking and virtual screening in the molecular operating environment. Scholz C, Knorr S, Hamacher K, Schmidt B. J Chem Inf Model. 2015 Feb 23;55(2):398-406. doi: 10.1021/ci500681r.
  • α-Keto phenylamides provide a link between the primed and non-primed substrate binding site in the 20S proteasome. Voss C, Scholz C, Knorr S, Beck P, Stein ML, Zall A, Kuckelkorn U, Kloetzel PM, Groll M, Hamacher K, Schmidt B. ChemMedChem, 9(11):1860-7187, 2014.
  • Clustering of Giant Virus-DNA Based on Variations in Local Entropy. Bose R, Thiel G, Hamacher K. Viruses, 6(6), 2259-2267, 2014.
  • Using Graphics Processing Units to Investigate Molecular Coevolution, Concurrency and Computation.Waechter M, Jaeger K, Thuerck D, Weissgraeber S, Widmer S, Goesele M, Hamacher K. Practice and Experience, 26(6):1278-1296, 2014.
  • Phycodnavirus Potassium Ion Channel Proteins Question the Virus Molecular Piracy Hypothesis. Hamacher K, Greiner T, Van Etten JL, Gebhardt M, Villarreal LP, Moroni A, Thiel G. PLoS One, 7(6): e38826, 2012
  • Information-Theoretic Analysis of Molecular (Co)Evolution using Graphics-Processing Units, 3rd International Emerging. Waechter M, Jaeger K, Weissgraeber S, Widmer S, Goesele M, Hamacher K. Computational Methods for the Life Sciences Workshop (ECMLS 2012) , 49-58, 2012.
  • Is Your Permutation Algorithm Unbiased for n≠2**m ? Waechter M, Hamacher K, Hoffgaard F, Widmer S, Goesele M. 9th Int. Conf. on Parallel Processing & Appl.Mathematics (PPAM2011), Lecture Notes in Computer Science (LNCS Volume 7203), pp. 297-306, 2012.
  • A New Hybrid Metaheuristic – Combining Stochastic Tunneling and Energy Landscape Paving. K. Hamacher, 8th International Workshop on Hybrid Metaheuristics (HM2013), Lecture Notes in Computer Science (LNCS 7919), pp. 107-117, 2013.
  • Structure-Based, biophysical Annotation of Molecular Coevolution of Acetylcholinesterase. S. Weißgraeber, F. Hoffgaard, K. Hamacher, Proteins: Structure, Function, and Bioinformatics, 79(11):3144-3154, 2011.
  • Interactive Visual Comparison of Multiple Trees. Bremm S, von Landesberger T, Hess M, Schreck T, Weil P, Hamacher K. IEEE Conference on Visual Analytics Science and Technology (VAST2011), 31-40, 2011.
  • Discrimination of Kinetic Models by a Combination of Microirradiation and Fluorescence Photobleaching. Lengert L, Lengert N, Drossel B, Cardoso MC, Muster B, Nowak D, Rapp A. Biophys J. 2015 Oct 20;109(8):1551-64. doi: 10.1016/j.bpj.2015.08.031
  • Altered spatio-temporal dynamics of RNase H2 complex assembly at replication and repair sites in Aicardi-Goutières syndrome. Kind B, Muster B, Staroske W, Herce HD, Sachse R, Rapp A, Schmidt F, Koss S, Cardoso MC, Lee-Kirsch MA. Hum Mol Genet. 2014 Nov 15;23(22):5950-60. doi: 10.1093/hmg/ddu319.
  • In vivo epitope recognition pitfalls affect g-H2AX chromobody function in living cells. Rajan M, Mortusewicz O, Rothbauer U, Zolghadr K, Schmidthals K, Rapp A, Leonhardt H, Cardoso MC. Epigenetics & Chromatin FEBS Open Biol 5: 779-788. (2015) .
  • 3D replicon distributions arise from stochastic initiation and domino-like DNA replication progression. Löb D, Lengert N, Chagin VO, Reinhart M, Casas-Delucchi CS, Cardoso MC, Drossel B. Nat Commun. 2016 Apr 7;7:11207. doi: 10.1038/ncomms11207.
  • Generation of an alpaca-derived nanobody recognizing γ-H2AX. Rajan M, Mortusewicz O, Rothbauer U, Hastert FD, Schmidthals K, Rapp A, Leonhardt H, Cardoso MC. FEBS Open Bio. 2015 Sep 21;5:779-88. doi: 10.1016/j.fob.2015.09.005.
  • Discrimination of Kinetic Models by a Combination of Microirradiation and Fluorescence Photobleaching. Lengert L, Lengert N, Drossel B, Cardoso MC, Muster B, Nowak D, Rapp A. Biophys J. 2015 Oct 20;109(8):1551-64. doi: 10.1016/j.bpj.2015.08.031.
  • Live-cell targeting of his-tagged proteins by multivalent N-nitrilotriacetic acid carrier complexes. Wieneke R, Labòria N, Rajan M, Kollmannsperger A, Natale F, Cardoso MC, Tampé R. J Am Chem Soc. 2014 Oct 8;136(40):13975-8. doi: 10.1021/ja5063357.
  • The histone variant H2A.Bbd is enriched at sites of DNA synthesis. Sansoni V, Casas-Delucchi CS, Rajan M, Schmidt A, Bönisch C, Thomae AW, Staege MS, Hake SB, Cardoso MC, Imhof A. Nucleic Acids Res. 2014 Jun;42(10):6405-20. doi: 10.1093/nar/gku303.
  • Altered spatio-temporal dynamics of RNase H2 complex assembly at replication and repair sites in Aicardi-Goutières syndrome. Kind B, Muster B, Staroske W, Herce HD, Sachse R, Rapp A, Schmidt F, Koss S, Cardoso MC, Lee-Kirsch MA. Hum Mol Genet. 2014 Nov 15;23(22):5950-60. doi: 10.1093/hmg/ddu319.
  • A novel cell permeable DNA replication and repair marker. Herce HD, Rajan M, Lättig-Tünnemann G, Fillies M, Cardoso MC. Nucleus. 2014;5(6):590-600. doi: 10.4161/nucl.36290.
  • Repositioning and targeting irradiation of offline preselected single cell nuclei for chromatin decondensation measurements using the heavy ion microprobe. Abdollahi E, Özgün-Korkusuz N, Voss KO , Durante M , Taucher-Scholz G, Jakob B. GSI Scientific Report 2015, ,APPA-Health 6,(2016).
  • The recruitment of the resection regulators RIF1 and BRCA1 to complex DNAdouble-strand breaks in G1 cells after heavy-ion irradiation. Syzonenko T, Jakob B, Becker G, Durante M, Taucher-Scholz G, Averbeck NB. GSI Scientific Report 2015, ,APPA-Health 4, (2016).
  • Upgrading the GSI beamline microscope with a confocal fluorescence lifetime scanner to monitor charged particle induced chromatin decondensation in living cells. Abdollahi E, Taucher-Scholz G, Durante M, Jakob B. Nucl. Instr. and Meth. in Phys. Res. B, 365 B :626-630 (2015).
  • X-ray irradiation activates K+ channels via H2O2 signaling. Gibhardt CS, Roth B, Schroeder I, Fuck S, Becker P, Jakob B, Fournier C, Moroni A, Thiel G. Sci Rep. 2015 Sep 9;5:13861. doi: 10.1038/srep13861.
  • Induction and Processing of the Radiation-Induced Gamma-H2AX Signal and Its Link to the Underlying Pattern of DSB: A Combined Experimental and Modelling Study. Tommasino F, Friedrich T, Jakob B, Meyer B, Durante M, Scholz M. PLoS One. Jun 11;10(6):e0129416, (2015).
  • Detection of chromatin decondensation induced by charged particle irradiation using Fluorescence Lifetime Imaging Microscopy. Abdollahi E, Özgün-Korkusuz N, Durante M, Taucher-Scholz G, Jakob B. GSI Scientific Report 2014, APPA-Health 4,81, (2015).
  • Comparative studies on the effect of x-ray and heavy ion irradiation on ROS signalling and K+ channel activation in A549 cells. Roth B, Gibhardt C, Jakob B, Fournier C, Thiel G. Scientific Report 2014, APPA-Health 20,97 (2015).
  • Experimental and modeling analysis of H2AX dose response curves in the framework of the GLOBLE model. Tommasino F, Friedrich T, Jakob B, Meyer B, Durante M, Scholz M. Scientific Report 2014, APPA-Health 41,121, (2015).
  • ATM alters the otherwise robust chromatin mobility at sites of DNA double-strand breaks (DSBs) in human cells. Becker A, Durante M, Taucher-Scholz G, Jakob B. PLoS One. Mar 20;9(3):e92640, (2014).
  • Construction of a X-Ray Cabinet for Live Cell Experiments. Khan R, Becker A, Taucher-Scholz G, Durante M, Fehrenbacher G, Jakob B. GSI Scientific Report 2013, 1-2014,256, (2014).
  • Influence of the chromatin remodeler ACF1 on the dynamic behaviour of 53BP1 foci after heavy ion irradiation. Becker A, Jakob B, Khan R, Leifke AL, Becker G, Durante M, Taucher-Scholz G. GSI Scientific Report 2012, Health 43, (2013).
  • Influence of PARP on irradiation induced foci dynamics. Becker A, Jakob B, Leifke AL, Becker G, Durante M, Taucher-Scholz G. GSI Scientific Report 2011, 517, (2012).
  • Single molecule microscopy in 3D cell cultures and tissues. Lauer FM, Kaemmerer E, Meckel T. Adv Drug Deliv Rev. (2014), 79-80:79-94. doi: 10.1016/j.addr.2014.10.008.
  • A radiosensitizing effect of artesunate in glioblastoma cells is associated with a downregulation of the inhibitor of apoptosis protein survivin. Reichert S, Reinboldt V, Hehlgans S, Efferth T, Rödel C, Rödel F. Radiother Oncol 2012;103(3):394-401
  • Survivin as a prognostic/predictive molecular maker and therapeutic target in cancer therapy. Rödel F, Sprenger T, Kaina B, Liersch T, Rödel C., Fulda S, Hehlgans S. Curr Med Chem 2012,19,3679-88.
  • Targeting and radiosensitization of glioblastoma cells by cmHsp70.1-antibody coated and survivin miRNA plasmid-loaded nanoparticles. Gaca S, Reichert S, Multhoff G, Hehlgans S, Botzler K, Rödel C, Kreuter J, Rödel F. J Control Release 2013;172(1):201-206.
  • Double targeting of Survivin and XIAP radiosensitizes 3D grown human colorectal tumor cells and decreases migration. Hehlgans S, Petraki C, Reichert S, Cordes N, Rödel C, Rödel F. Radiother Oncol 2013;108(1):32-39.
  • A non-linear detection of phospho- histone H2AX in EA.hy926 endothelial cells following low-dose X-irradiation is modulated by reactive oxygene species. Large M, Reichert S, Hehlgans S, Fournier C, Rödel C, Rödel F. Radiat Oncol 2014;9:80.
  • Kill and spread the word: Stimulation of anti-tumour immune responses in the context of radiotherapy. Gaipl US, Multhoff G, Scheithauer H, Lauber K, Hehlgans S, Frey B, Rödel F. Immunotherapy 2014;6(5):597-610.
  • Study of the anti-inflammatory effects of low-dose radiation: The contribution of biphasic regulation of the antioxidative system in endothelial cells. Large M, Hehlgans S, Reichert S, Gaipl U, Fournier C, Rödel C, Weiss C, Rödel F. Strahlenther Onkol 2015;191:742-749.
  • Modulation of inflammation by low and high doses of ionizing radiation – implications for benign and malign diseases. Frey B, Hehlgans S, Rödel F, Gaipl U. Cancer Letters 2015 ;368:230-7
  • Contribution of the immune system to non-targeted effects of ionizing radiation. Rödel F, Frey B, Multhoff G, Gaipl U. Cancer Lett 2015;356:105-13.
  • The SMAC mimetic BV6 sensitizes colorectal cancer cells to ionizing radiation by interfering with DNA repair processes and enhancing apoptosis. Hehlgans S, Oppermann J, Reichert S, Fulda S, Rödel C, Rödel F. Radiat Oncol 2015;10:198.
  • Anti-epidermal growth factor receptor immunotherapy in combination with cisplatin chemoradiation for patients with advanced head and neck carcinoma—biological and clinical limitations of the triple treatment. Rödel F, Balermpas P. Transl Cancer Res 2016;5:199-202.
  • Direct measurement of the 3-dimensional DNA lesion distribution induced by energetic charged particles in a mouse model tissue. Mirsch J, Tommasino F, Frohns A, Conrad S, Durante M, Scholz M, Friedrich T, Löbrich M. Proc Natl Acad Sci USA, 112 (40) :12396-401 (2015).
  • Induction and Processing of the Radiation-Induced Gamma-H2AX Signal and Its Link to the Underlying Pattern of DSB: A Combined Experimental and Modelling Study. Tommasino F, Friedrich T, Jakob B, Meyer B, Durante M, Scholz M. PLoS One, 10 (6) :e0129416 (2015).
  • Application of the local effect model to predict DNA double-strand break rejoining after photon and high-let irradiation. Tommasino F, Friedrich T, Scholz U, Taucher-Scholz G, Durante M, Scholz M. Radiat Prot Dosimetry, : (2015).
  • A DNA Double-Strand Break Kinetic Rejoining Model Based on the Local Effect Model. Tommasino F, Friedrich T, Scholz U, Taucher-Scholz G, Durante M, Scholz M. Radiat. Res., 180 (5) :524-38 (2013).
  • Experimental and modelling studies for the validation of the mechanistic basis of the Local Effect Model. Tommasino F. Il Nuovo Cimento 39 C (2016) 287.
  • Elastase-like Activity Is Dominant to Chymotrypsin-like Activity in 20S Proteasome's β5 Catalytic Subunit. Bensinger D, Neumann T, Scholz C, Voss C, Knorr S, Kuckelkorn U, Hamacher K, Kloetzel PM, Schmidt B. ACS Chem Biol 2016, 11 (7), 1800-4.
  • DOCKTITE-A Highly Versatile Step-by-Step Workflow for Covalent Docking and Virtual Screening in the Molecular Operating Environment. Scholz C, Knorr S, Hamacher K, Schmidt B. Journal of Chemical Information and Modeling 2015, 55 (2), 398-406.
  • alpha-Keto Phenylamides as P1 '-Extended Proteasome Inhibitors. Voss C, Scholz C, Knorr S, Beck P, Stein, ML, Zall A, Kuckelkorn U, Kloetzel PM, Groll M, Hamacher K, Schmidt B. Chemmedchem 2014, 9 (11), 2557-2564.
  • Maßgeschneiderte In-vivo-Assays als tierschutzkonforme Alternative in der Wirkstoffentwicklung. Voss V, Schmidt B. Labor&More 2013/08.
  • Systematic Comparison of Peptidic Proteasome Inhibitors Highlights the alpha-Ketoamide Electrophile as an Auspicious Reversible Lead Motif. Stein M, Cui H, Beck P, Dubiella C, Voss C, Kruger A, Schmidt B, Groll M. Angewandte Chemie-International Edition 2014, 53 (6), 1679-1683.
  • Cell Cycle Regulation and Apoptotic Responses of the Embryonic Chick Retina by Ionizing Radiation. Mayer M, Kaiser N, Layer PG, Frohns F. PLoS One. 2016 May 10;11(5):e0155093. doi: 10.1371/journal.pone.0155093. eCollection 2016.
  • Deducing underlying mechanisms from protein recruitment data. Lengert L, Drossel B. PloS one 8(6) 2013.
  • Discrimination of Kinetic Models by a Combination of Microirradiation and Fluorescence Photobleaching. Lengert L, Lengert N, Drossel B, Cardoso MC, Muster B, Nowak D, Rapp A. Biophysical journal 109(8), 1551-1564 (2015).
  • In silico analysis of exercise intolerance in myalgic encephalomyelitis/chronic fatigue syndrome. Lengert N, Drossel B. Biophysical chemistry 202, 21-31 (2015)
  • 3D replicon distributions arise from stochastic initiation and domino-like DNA replication progression. Löb D, Lengert N, Chagin VO, Reinhart M, Casas-Delucchi CS, Cardoso MC, Drossel B. Nature communications 7, 11207 (2016).
  • Exposure to carbon ions triggers pro-inflammatory signals, changes in homeostasis and epidermal tissue organization to a similar extent as photons Front. Simoniello P, Wiedemann J, Zink J, Thönnes E, Stange M, Layer PG, Kovacs M, Podda M, Durante M, Fournier C. Oncol., : (2015) DOI: 10.3389/fonc.2015.00294. Front. Oncol. 5:294.
  • Impact of Charged Particle Exposure on Homologous DNA Double-Strand Break Repair in Human Blood-Derived Cells. Rall M, Kraft D, Volcic M, Cucu A, Nasonova E, Taucher-Scholz G, Bönig H, Wiesmüller L, Fournier C. Front Oncol 5: 250.
  • NF-κB-dependent DNA damage-signaling differentially regulates DNA double-strand break repair mechanisms in immature and mature human hematopoietic cells. Kraft D, Rall M, Volcic M, Metzler E, Groo A, Stahl A, Bauer L, Nasonova E, Salles D, Taucher-Scholz G, Bönig H, Fournier C, Wiesmüller L. Leukemia 29: 1543-1554, 2015.
  • X-ray irradiation activates K+ channels via H2O2 signaling. Gibhardt C, Roth B, Schroeder I, Fuck S, Becker P, Jakob B, Fournier C, Moroni A, Thiel G. Sci. Rep. 5, 13861; doi: 10.1038/srep13861 (2015).