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Maffei, E., Shaidullina, A., Burkolter, M., Druelle, V., Willi, L., Estermann, F., Michaelis, S., Hilbi, H., Thaler, D. S. and Harms, A. (2021) ‘Systematic exploration of Escherichia coli phage-host interactions with the BASEL phage collection’. bioRxiv. doi: 10.1101/2021.03.08.434280.   edoc | Open Access
Dietz, N., Huber, M., Sorg, I., Goepfert, A., Harms, A., Schirmer, T. and Dehio, C. (2021) ‘Structural basis for selective AMPylation of Rac-subfamily GTPases by Bartonella effector protein 1 (Bep1)’, Proceedings of the National Academy of Sciences, 118(12), p. e2023245118. doi: 10.1073/pnas.2023245118.   edoc | Open Access
Schirmer, T., de Beer, T. A. P., Tamegger, S., Harms, A., Dietz, N., Dranow, D. M., Edwards, T. E., Myler, P. J., Phan, I. and Dehio, C. (2021) ‘Evolutionary Diversification of Host-Targeted; Bartonella; Effectors Proteins Derived from a Conserved FicTA Toxin-Antitoxin Module’, Microorganisms, 9(8), p. 23. doi: 10.3390/microorganisms9081645.   
Dietz, N. B., Huber, M., Sorg, I., Goepfert, A., Harms, A., Schirmer, T. and Dehio, C. (2020) ‘Structural basis for selective targeting of Rac subfamily GTPases by a bacterial effector protein’. bioRxiv. doi: 10.1101/2020.06.29.167221.   edoc | Open Access
Horesh, G., Fino, C., Harms, A., Dorman, M. J., Parts, L., Gerdes, K., Heinz, E. and Thomson, N. R. (2020) ‘Type II and type IV toxin-antitoxin systems show different evolutionary patterns in the global Klebsiella pneumoniae population’, Nucleic Acids Research, 48(8), pp. 4357–4370. doi: 10.1093/nar/gkaa198.   edoc
Sorg, I., Schmutz, C., Lu, Y.-Y., Fromm, K., Siewert, L. K., Bögli, A., Strack, K., Harms, A. and Dehio, C. (2020) ‘A Bartonella effector acts as signaling hub for intrinsic STAT3 activation to trigger anti-inflammatory responses’, Cell host & microbe, 27(3), pp. 476–485. doi: 10.1016/j.chom.2020.01.015.   edoc | Open Access
Fino, C., Vestergaard, M., Ingmer, H., Pierrel, F., Gerdes, K. and Harms, A. (2020) ‘PasT of Escherichia coli sustains antibiotic tolerance and aerobic respiration as a bacterial homolog of mitochondrial Coq10’, MicrobiologyOpen, 9(8), p. e1064. doi: 10.1002/mbo3.1064.   
Righetto, R. D., Anton, L., Adaixo, R., Jakob, R. P., Zivanov, J., Mahi, M.-A., Ringler, P., Schwede, T., Maier, T. and Stahlberg, H. (2020) ‘High-resolution cryo-EM structure of urease from the pathogen Yersinia enterocolitica’, Nature communications, 11(1), p. 5101. doi: 10.1038/s41467-020-18870-2.   
Svenningsen, M. S., Veress, A., Harms, A., Mitarai, N. and Semsey, S. (2019) ‘Birth and Resuscitation of (p)ppGpp Induced Antibiotic Tolerant Persister Cells’, Scientific Reports, 9(1), p. 6056. doi: 10.1038/s41598-019-42403-7.   edoc | Open Access
Harms, A. and Diard, M. (2019) ‘Crowd Controlled-Host Quorum Sensing Drives Phage Decision’, Cell host & microbe, 25(2), pp. 179–181. doi: 10.1016/j.chom.2019.01.016.   edoc
Balaban, N. Q., Helaine, S., Lewis, K., Ackermann, M., Aldridge, B., Andersson, D. I., Brynildsen, M. P., Bumann, D., Camilli, A., Collins, J. J., Dehio, C., Fortune, S. M., Ghigo, J.-M., Hardt, W.-D., Harms, A., Heinemann, M., Hung, D. T., Jenal, U., Levin, B. R., Michiels, J., Storz, G., Tan, M.-W., Tenson, T., Van Melderen, L. and Zinkernagel, A. (2019) ‘Definitions and guidelines for research on antibiotic persistence’, Nature Reviews Microbiology, 17(7), pp. 441–448. doi: 10.1038/s41579-019-0196-3.   edoc
Harms, A. (2019) ‘The Biology of Persister Cells in Escherichia coli’, in Lewis, K. (ed.) Persister Cells and Infectious Disease. Cham: Springer Nature, pp. 39–57. doi: 10.1007/978-3-030-25241-0_3.   edoc
Vettiger, A. (2019) Shining light on T6SS mode of action and function within single cells and bacterial communities. doi: 10.5451/unibas-007116201.   edoc | Open Access
Arquint, C., Cubizolles, F., Morand, A., Schmidt, A. and Nigg, E. A. (2018) ‘The SKP1-Cullin-F-box E3 ligase βTrCP and CDK2 cooperate to control STIL abundance and centriole number’, Open biology, 8(2), p. 16. doi: 10.1098/rsob.170253.   edoc
Gruber, A. J., Schmidt, R., Ghosh, S., Martin, G., Gruber, A. R., van Nimwegen, E. and Zavolan, M. (2018) ‘Discovery of physiological and cancer-related regulators of 3’ UTR processing with KAPAC’, Genome biology, 19(1), p. 44. doi: 10.1186/s13059-018-1415-3.   edoc
Rzepiela, A. J., Ghosh, S., Breda, J., Vina-Vilaseca, A., Syed, A. P., Gruber, A. J., Eschbach, K., Beisel, C., van Nimwegen, E. and Zavolan, M. (2018) ‘Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction’, Molecular systems biology, 14(8), p. e8266. doi: 10.15252/msb.20188266.   edoc
Gruber, A. J., Gypas, F., Riba, A., Schmidt, R. and Zavolan, M. (2018) ‘Terminal exon characterization with TECtool reveals an abundance of cell-specific isoforms’, Nature methods, 15(10), pp. 832–836. doi: 10.1038/s41592-018-0114-z.   edoc
Harms, A., Brodersen, D. E., Mitarai, N. and Gerdes, K. (2018) ‘Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology’, Molecular cell, 70(5), pp. 768–784. doi: 10.1016/j.molcel.2018.01.003.   edoc
Horesh, G., Harms, A., Fino, C., Parts, L., Gerdes, K., Heinz, E. and Thomson, N. R. (2018) ‘SLING: a tool to search for linked genes in bacterial datasets’, Nucleic Acids Res, 46(21), p. e128. doi: 10.1093/nar/gky738.   edoc
Ferreira-Pinto, M. J., Ruder, L., Capelli, P. and Arber, S. (2018) ‘Connecting Circuits for Supraspinal Control of Locomotion’, Neuron, 100(2), pp. 361–374. doi: 10.1016/j.neuron.2018.09.015.   edoc | Open Access
Hagmann, A. (2018) Regulation of eukaryotic acetyl-CoA carboxylases. doi: 10.5451/unibas-006827378.   edoc | Open Access
Rühl, S. (2018) Effector mechanisms of non-canonical inflammasome activation. doi: 10.5451/unibas-006803410.   edoc | Open Access
Harms, A., Fino, C., Sørensen, M. A., Semsey, S. and Gerdes, K. (2017) ‘Prophages and Growth Dynamics Confound Experimental Results with Antibiotic-Tolerant Persister Cells’, MBio, 8(6), pp. ii:e01964–17. doi: 10.1128/mBio.01964-17.   edoc
Ringel, P. D., Hu, D. and Basler, M. (2017) ‘The Role of Type VI Secretion System Effectors in Target Cell Lysis and Subsequent Horizontal Gene Transfer’, Cell Reports, 21(13), pp. 3927–3940. doi: 10.1016/j.celrep.2017.12.020.   edoc | Open Access
Martin, G., Schmidt, R., Gruber, A. J., Ghosh, S., Keller, W. and Zavolan, M. (2017) ‘3’ End Sequencing Library Preparation with A-seq2’, Journal of Visualized Experiments, (128), p. e56129. doi: 10.3791/56129.   edoc
Herbst, D. A. (2017) Functional architectures of polyketide synthases. doi: 10.5451/unibas-006789988.   edoc | Open Access
Jenal, U., Reinders, A. and Lori, C. (2017) ‘Cyclic di-GMP: second messenger extraordinaire’, Nature Reviews Microbiology, 15(5), pp. 271–284. doi: 10.1038/nrmicro.2016.190.   edoc | Open Access
Storm, P. A., Herbst, D. A., Maier, T. and Townsend, C. A. (2017) ‘Functional and Structural Analysis of Programmed C-Methylation in the Biosynthesis of the Fungal Polyketide Citrinin’, Cell Chemical Biology, 24(3), pp. 316–325. doi: 10.1016/j.chembiol.2017.01.008.   edoc
Vettiger, A., Winter, J., Lin, L. and Basler, M. (2017) ‘The type VI secretion system sheath assembles at the end distal from the membrane anchor’, Nature Communications, 8, p. 16088. doi: 10.1038/ncomms16088.   edoc
Dimitrova, Y., Gruber, A. J., Mittal, N., Ghosh, S., Dimitriades, B., Mathow, D., Grandy, W. A., Christofori, G. and Zavolan, M. (2017) ‘TFAP2A is a component of the ZEB1/2 network that regulates TGFB1-induced epithelial to mesenchymal transition’, Biology Direct, 12(1), p. 8. doi: 10.1186/s13062-017-0180-7.   edoc
Sborgi, L., Rühl, S., Mulvihill, E., Pipercevic, J., Heilig, R., Stahlberg, H., Farady, C. J., Müller, D. J., Broz, P. and Hiller, S. (2016) ‘GSDMD membrane pore formation constitutes the mechanism of pyroptotic cell death’, The EMBO Journal, 35(16), pp. 1766–1778. doi: 10.15252/embj.201694696.   edoc | Open Access
Gruber, A. J., Schmidt, R., Gruber, A. R., Martin, G., Ghosh, S., Belmadani, M., Keller, W. and Zavolan, M. (2016) ‘A comprehensive analysis of 3’ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation’, Genome Research, 26(8), pp. 1145–1159. doi: 10.1101/gr.202432.115.   edoc | Open Access
Herbst, D. A., Jakob, R. P., Zähringer, F. and Maier, T. (2016) ‘Mycocerosic acid synthase exemplifies the architecture of reducing polyketide synthases’, Nature, 531(7595), pp. 533–537. doi: 10.1038/nature16993.   edoc | Open Access
Baron, A. P., von Schubert, C., Cubizolles, F., Siemeister, G., Hitchcock, M., Mengel, A., Schröder, J., Fernández-Montalván, A., von Nussbaum, F., Mumberg, D. and Nigg, E. A. (2016) ‘Probing the catalytic functions of Bub1 kinase using the small molecule inhibitors BAY-320 and BAY-524’, eLife, 5, p. e12187. doi: 10.7554/eLife.12187.   edoc
Renzi, F., Zähringer, U., Chandler, C. E., Ernst, R. K., Cornelis, G. R. and Ittig, S. J. (2016) ‘Modification of the 1-phosphate group during biosynthesis of Capnocytophaga canimorsus lipid A’, Infection and immunity, 84(2), pp. 550–561. doi: 10.1128/IAI.01006-15.   edoc
Matsuda, S., Harmansa, S. and Affolter, M. (2016) ‘BMP morphogen gradients in flies’, Cytokine & Growth Factor Reviews, 27, pp. 119–127. doi: 10.1016/j.cytogfr.2015.11.003.   edoc
Harms, A., Maisonneuve, E. and Gerdes, K. (2016) ‘Mechanisms of bacterial persistence during stress and antibiotic exposure’, Science, 354(6318), p. ii:aaf4268. doi: 10.1126/science.aaf4268.   edoc
Harms, A. and Gerdes, K. (2016) ‘Back to the Roots: Deep View into the Evolutionary History of ADP-Ribosylation Opened by the DNA-Targeting Toxin-Antitoxin Module DarTG’, Molecular cell, 64(6), pp. 1020–1021. doi: 10.1016/j.molcel.2016.11.038.   edoc
Stanger, F. V., Harms, A., Dehio, C. and Schirmer, T. (2016) ‘Crystal Structure of the; Escherichia coli; Fic Toxin-Like Protein in Complex with Its Cognate Antitoxin’, PLoS One, 11(9), p. e0163654. doi: 10.1371/journal.pone.0163654.   edoc
Arquint, C. and Nigg, E. A. (2016) ‘The PLK4-STIL-SAS-6 module at the core of centriole duplication’, Biochemical Society Transactions, 44(5), pp. 1253–1263. doi: 10.1042/BST20160116.   edoc
Harms, A., Stanger, F. V. and Dehio, C. (2016) ‘Biological Diversity and Molecular Plasticity of FIC Domain Proteins’, Annual Reviews of Microbiology. Annual Reviews, pp. 341–360. doi: 10.1146/annurev-micro-102215-095245.   edoc
Hagmann, A., Hunkeler, M., Stuttfeld, E. and Maier, T. (2016) ‘Hybrid Structure of a Dynamic Single-Chain Carboxylase from Deinococcus radiodurans’, Structure, 24(8), pp. 1227–1236. doi: 10.1016/j.str.2016.06.001.   edoc
Vettiger, A. and Basler, M. (2016) ‘Type VI Secretion System Substrates Are Transferred and Reused among Sister Cells’, Cell, 167(1), pp. 99–110.e12. doi: 10.1016/j.cell.2016.08.023.   edoc
Rühl, S. and Broz, P. (2016) ‘The gasdermin-D pore: Executor of pyroptotic cell death’, Oncotarget. Impact Journals LLC, pp. 57481–57482. doi: 10.18632/oncotarget.11421.   edoc
Nelson, M. B., Chase, A. B., Martiny, J. B. H., Stocker, R., Nguyen, J., Lloyd, K., Oshiro, R. T., Kearns, D. B., Schneider, J. P., Ringel, P. D., Basler, M., Olson, C. A., Vuong, H. E., Hsiao, E. Y., Roller, B. R. K., Ackermann, M., Smillie, C., Chien, D., Alm, E. and Jermy, A. J. (2016) ‘The Microbial Olympics 2016’, Nature Microbiology, 1(8), p. 16122. doi: 10.1038/nmicrobiol.2016.122.   edoc
Ruder, L., Takeoka, A. and Arber, S. (2016) ‘Long-Distance Descending Spinal Neurons Ensure Quadrupedal Locomotor Stability’, Neuron, 92(5), pp. 1063–1078. doi: 10.1016/j.neuron.2016.10.032.   edoc
Bieli, D., Alborelli, I., Harmansa, S., Matsuda, S., Caussinus, E. and Affolter, M. (2016) ‘Development and Application of Functionalized Protein Binders in Multicellular Organisms’, International Review of Cell and Molecular Biology, 325, pp. 181–213. doi: 10.1016/bs.ircmb.2016.02.006.   edoc
Dick, M. S., Sborgi, L., Rühl, S., Hiller, S. and Broz, P. (2016) ‘ASC filament formation serves as a signal amplification mechanism for inflammasomes’, Nature Communications, 7, p. 11929. doi: 10.1038/ncomms11929.   edoc | Open Access
Stanger, F. V., Harms, A., Dehio, C. and Schirmer, T. (2016) ‘Crystal Structure of the Escherichia coli Fic Toxin-Like Protein in Complex with Its Cognate Antitoxin’, PLoS ONE, 11(9), p. e0163654. doi: 10.1371/journal.pone.0163654.   edoc | Open Access
Hunkeler, M., Stuttfeld, E., Hagmann, A., Imseng, S. and Maier, T. (2016) ‘The dynamic organization of fungal acetyl-CoA carboxylase’, Nature Communications, 7, p. 11196. doi: 10.1038/ncomms11196.   edoc | Open Access
Stanger, F. V., Burmann, B. M., Harms, A., Aragão, H., Mazur, A., Sharpe, T., Dehio, C., Hiller, S. and Schirmer, T. (2016) ‘Intrinsic regulation of FIC-domain AMP-transferases by oligomerization and automodification’, Proceedings of the National Academy of Sciences of the United States of America, 113(5), pp. E529-E537. doi: 10.1073/pnas.1516930113.   edoc | Open Access
Reinders, A., Hee, C.-S., Ozaki, S., Mazur, A., Boehm, A., Schirmer, T. and Jenal, U. (2016) ‘Expression and Genetic Activation of Cyclic Di-GMP-Specific Phosphodiesterases in Escherichia coli’, Journal of Bacteriology, 198(3), pp. 448–462. doi: 10.1128/JB.00604-15.   edoc
Bolz, M., Bénard, A., Dreyer, A. M., Kerber, S., Vettiger, A., Oehlmann, W., Singh, M., Duthie, M. S. and Pluschke, G. (2016) ‘Vaccination with the surface proteins MUL_2232 and MUL_3720 of Mycobacterium ulcerans induces antibodies but fails to provide protection against Buruli ulcer’, PLoS neglected tropical diseases, 10(2), p. e0004431. doi: 10.1371/journal.pntd.0004431.   edoc | Open Access
Ittig, S. J., Schmutz, C., Kasper, C. A., Amstutz, M., Schmidt, A., Sauteur, L., Vigano, M. A., Low, S. H., Affolter, M., Cornelis, G. R., Nigg, E. A. and Arrieumerlou, C. (2015) ‘A bacterial type III secretion-based protein delivery tool for broad applications in cell biology’, The Journal of cell biology, 211(4), pp. 913–931. doi: 10.1083/jcb.201502074.   edoc
Rühl, S. and Broz, P. (2015) ‘Caspase-11 activates a canonical NLRP3 inflammasome by promoting K+ efflux’, European journal of immunology, 45(10), pp. 2927–2936. doi: 10.1002/eji.201545772.   edoc
Harms, A., Stanger, F. V., Scheu, P. D., de Jong, I. G., Goepfert, A., Glatter, T., Gerdes, K., Schirmer, T. and Dehio, C. (2015) ‘Adenylylation of Gyrase and Topo IV by FicT Toxins Disrupts Bacterial DNA Topology’, Cell Reports, 12(9), pp. 1497–1507. doi: 10.1016/j.celrep.2015.07.056.   edoc | Open Access
Hollaus, R., Ittig, S. J., Hofinger, A., Haegman, M., Beyaert, R., Kosma, P. and Zamyatina, A. (2015) ‘Chemical synthesis of Burkholderia Lipid A modified with glycosyl phosphodiester-linked 4-amino-4-deoxy-β-L-arabinose and its immunomodulatory potential’, Chemistry, a European journal, 21(10), pp. 4102–4114. doi: 10.1002/chem.201406058.   edoc
Reinders, A. (2015) A moonlighting enzyme imposes second messenger bistability to drive lifestyle decisions in E. coli. doi: 10.5451/unibas-006812280.   edoc | Open Access
Gruber, A. J. (2015) Computational analysis of transcriptional and post-transcriptional regulation of gene expression. doi: 10.5451/unibas-006768410.   edoc | Open Access
Baron, A. (2015) On the regulation of chromosome segregation in human cells : implications of Bub1 Kinase inhibition during cell division. doi: 10.5451/unibas-006624645.   edoc | Open Access
Basaldella, E. (2015) Cross-modal sensory signaling shapes vestibulo-motor circuit specificity. doi: 10.5451/unibas-006572970.   edoc | Open Access
Bauer, M., Ahrné, E., Baron, A. P., Glatter, T., Fava, L. L., Santamaria, A., Nigg, E. A. and Schmidt, A. (2015) ‘Assessment of current mass spectrometric workflows for the quantification of low abundant proteins and phosphorylation sites’, Data in brief, 5, pp. 297–304. doi: 10.1016/j.dib.2015.08.015.   edoc
Borenstein, D. B., Ringel, P., Basler, M. and Wingreen, N. S. (2015) ‘Established microbial colonies can survive type VI secretion assault’, PLoS Computational Biology, 11(10), p. e1004520. doi: 10.1371/journal.pcbi.1004520.   edoc | Open Access
Gruss, F. (2015) Structural insights into Omp85-mediated protein translocation and insertion in the bacterial outer membrane. doi: 10.5451/unibas-006450358.   edoc | Open Access
Basaldella, E., Takeoka, A., Sigrist, M. and Arber, S. (2015) ‘Multisensory Signaling Shapes Vestibulo-Motor Circuit Specificity’, Cell, Vol. 163, H. 2, pp. 301–312. doi: 10.1016/j.cell.2015.09.023.   edoc
Kanitz, A., Gypas, F., Gruber, A. J., Gruber, A. R., Martin, G. and Zavolan, M. (2015) ‘Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data’, Genome biology, Vol. 16, p. 150. doi: 10.1186/s13059-015-0702-5.   edoc
Arquint, C., Gabryjonczyk, A.-M., Imseng, S., Böhm, R., Sauer, E., Hiller, S., Nigg, E. A. and Maier, T. (2015) ‘STIL binding to Polo-box 3 of PLK4 regulates centriole duplication’, eLife, 4, p. e07888. doi: 10.7554/eLife.07888.   edoc | Open Access
Lori, C., Ozaki, S., Steiner, S., Böhm, R., Abel, S., Dubey, B. N., Schirmer, T., Hiller, S. and Jenal, U. (2015) ‘Cyclic di-GMP acts as a cell cycle oscillator to drive chromosome replication’, Nature, Vol. 523, H. 7559, pp. 236–239. doi: 10.1038/nature14473.   edoc | Open Access
Meunier, E., Wallet, P., Dreier, R. F., Costanzo, S., Anton, L., Rühl, S., Dussurgey, S., Dick, M. S., Kistner, A., Rigard, M., Degrandi, D., Pfeffer, K., Yamamoto, M., Henry, T. and Broz, P. (2015) ‘Guanylate-binding proteins promote activation of the AIM2 inflammasome during infection with Francisella novicida’, Nature immunology, Vol. 16, H. 5, pp. 476–484. doi: 10.1038/ni.3119.   edoc
Rämö, P., Drewek, A., Arrieumerlou, C., Beerenwinkel, N., Ben-Tekaya, H., Cardel, B., Casanova, A., Conde-Alvarez, R., Cossart, P., Csúcs, G., Eicher, S., Emmenlauer, M., Greber, U., Hardt, W.-D., Helenius, A., Kasper, C., Kaufmann, A., Kreibich, S., Kühbacher, A., Kunszt, P., Low, S. H., Mercer, J., Mudrak, D., Muntwiler, S., Pelkmans, L., Pizarro-Cerdá, J., Podvinec, M., Pujadas, E., Rinn, B., Rouilly, V., Schmich, F., Siebourg-Polster, J., Snijder, B., Stebler, M., Studer, G., Szczurek, E., Truttmann, M., von Mering, C., Vonderheit, A., Yakimovich, A., Bühlmann, P. and Dehio, C. (2014) ‘Simultaneous analysis of large-scale RNAi screens for pathogen entry’, BMC Genomics, 15(1), p. 1162. doi: 10.1186/1471-2164-15-1162.   edoc | Open Access
Franceschini, A., Meier, R., Casanova, A., Kreibich, S., Daga, N., Andritschke, D., Dilling, S., Rämö, P., Emmenlauer, M., Kaufmann, A., Conde-Álvarez, R., Low, S. H., Pelkmans, L., Helenius, A., Hardt, W.-D., Dehio, C. and von Mering, C. (2014) ‘Specific inhibition of diverse pathogens in human cells by synthetic microRNA-like oligonucleotides inferred from RNAi screens’, Proceedings of the National Academy of Sciences, 111(12), pp. 4548–4553. doi: 10.1073/pnas.1402353111.   edoc
Harms, A. (2014) FIC domain toxins are the origin of intra- and inter-kingdom effectors of Bartonella. doi: 10.5451/unibas-006624952.   edoc | Open Access
Gruber, A. R., Martin, G., Müller, P., Schmidt, A., Gruber, A. J., Gumienny, R., Mittal, N., Jayachandran, R., Pieters, J., Keller, W., van Nimwegen, E. and Zavolan, M. (2014) ‘Global 3’ UTR shortening has a limited effect on protein abundance in proliferating T cells’, Nature Communications, 5(5465), pp. 1–10. doi: 10.1038/ncomms6465.   edoc | Open Access
Arquint, C. (2014) On the function and regulation of human STIL - a centrosomal protein implicated in autosomal recessive primary microcephaly. doi: 10.5451/unibas-006331585.   edoc | Open Access
Gruber, A. J., Grandy, W. A., Balwierz, P. J., Dimitrova, Y. A., Pachkov, M., Ciaudo, C., van Nimwegen, E. and Zavolan, M. (2014) ‘Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways’, Nucleic Acids Research, 42(14), pp. 9313–9326. doi: 10.1093/nar/gku544.   edoc | Open Access
Pieles, K., Glatter, T., Harms, A., Schmidt, A. and Dehio, C. (2014) ‘An experimental strategy for the identification of AMPylation targets from complex protein samples’, Proteomics, 14(9), pp. 1048–1052. doi: 10.1002/pmic.201300470.   edoc
Zähringer, U., Ittig, S., Lindner, B., Moll, H., Schombel, U., Gisch, N. and Cornelis, G. R. (2014) ‘NMR Based Structural Analysis of the Complete Rough-type LPS Isolated From Capnocytophaga canimorsus’, Journal of biological chemistry, Vol. 289, H. 34, pp. 23963–23976. doi: 10.1074/jbc.M114.571489.   edoc
Balwierz, P. J., Pachkov, M., Arnold, P., Gruber, A. J., Zavolan, M. and van Nimwegen, E. (2014) ‘ISMARA: Automated modeling of genomic signals as a democracy of regulatory motifs’, Genome research, Vol. 24, H. 5, pp. 869–884. doi: 10.1101/gr.169508.113.   edoc
Dill, M. T., Makowska, Z., Trincucci, G., Gruber, A. J., Vogt, J. E., Filipowicz, M., Calabrese, D., Krol, I., Lau, D. T., Terracciano, L., van Nimwegen, E., Roth, V. and Heim, M. H. (2014) ‘Pegylated IFN-α regulates hepatic gene expression through transient Jak/STAT activation’, Journal of Clinical Investigation, Vol. 124, H. 4, pp. 1568–1581. doi: 10.1172/JCI70408.   edoc
Gruss, F., Zähringer, F., Jakob, R. P., Burmann, B. M., Hiller, S. . and Maier, T. (2013) ‘The structural basis of autotransporter translocation by TamA’, Nature structural & molecular biology, Vol. 20, no. 11, pp. 1318–1320. doi: 10.1038/nsmb.2689.   edoc
Artner, D., Oblak, A., Ittig, S., Garate, J. A., Horvat, S., Arrieumerlou, C., Hofinger, A., Oostenbrink, C., Jerala, R., Kosma, P. and Zamyatina, A. (2013) ‘Conformationally constrained Lipid A mimetics for exploration of structural basis of TLR4/MD-2 activation by lipopolysaccharide’, ACS chemical biology, Vol. 15, H. 8, pp. 2423–2432. doi: 10.1021/cb4003199.   edoc
Goepfert, A., Harms, A., Schirmer, T. and Dehio, C. (2013) ‘Type II Toxin-Antitoxin Loci: The fic Family’, in Gerdes, K. (ed.) Prokaryotic Toxin-Antitoxins. Heidelberg: Springer Verlag, pp. 177–187. doi: 10.1007/978-3-642-33253-1_10.   edoc
Steiner, S., Lori, C., Boehm, A. and Jenal, U. (2013) ‘Allosteric activation of exopolysaccharide synthesis through cyclic di-GMP-stimulated protein-protein interaction’, The EMBO journal, 32(3), pp. 354–368. doi: 10.1038/emboj.2012.315.   edoc | Open Access
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