Einträge von Merkl, Rainer auf dem Publikationsserver

Kinateder, Thomas , Drexler, Lukas, Straub, Kristina , Merkl, Rainer und Sterner, Reinhard (2022) Experimental and computational analysis of the ancestry of an evolutionary young enzyme from histidine biosynthesis. Protein Science 32 (1), e4536.

Peterhoff, David , Thalhauser, Stefanie, Neckermann, Patrick , Barbey, Clara, Straub, Kristina, Nazet, Julian, Merkl, Rainer, Längst, Gernot, Breunig, Miriam und Wagner, Ralf (2022) Multivalent display of engineered HIV-1 envelope trimers on silica nanoparticles for targeting and in vitro activation of germline VRC01 B cells. European Journal of Pharmaceutics and Biopharmaceutics 181, S. 88-101. Volltext nicht vorhanden.

Heizinger, Leonhard und Merkl, Rainer (2021) Evidence for the preferential reuse of sub‐domain motifs in primordial protein folds. Proteins: Structure, Function, and Bioinformatics 89, S. 1167-1179.

Hoffmeister, Helen, Fuchs, Andreas , Komives, Elizabeth, Groebner‐Ferreira, Regina, Strobl, Laura, Nazet, Julian, Heizinger, Leonhard, Merkl, Rainer, Dove, Stefan und Längst, Gernot (2021) Sequence and functional differences in the ATPase domains of CHD3 and SNF2H promise potential for selective regulability and drugability. The FEBS Journal 288, S. 4000-4023.

Hertle, Regina, Nazet, Julian, Semmelmann, Florian, Schlee, Sandra, Funke, Franziska, Merkl, Rainer und Sterner, Reinhard (2021) Reprogramming the Specificity of a Protein Interface by Computational and Data-Driven Design. Structure 29 (3), 292-304.e3. Volltext nicht vorhanden.

Wallqvist, Anders , Schmitz, Samuel, Ertelt, Moritz , Merkl, Rainer und Meiler, Jens (2021) Rosetta design with co-evolutionary information retains protein function. PLOS Computational Biology 17 (1), e1008568. Volltext nicht vorhanden.

Zhang, Yang, Nazet, Julian , Lang, Elmar und Merkl, Rainer (2021) Rosetta:MSF:NN: Boosting performance of multi-state computational protein design with a neural network. PLOS ONE 16 (8), e0256691. Volltext nicht vorhanden.

Simeth, Nadja Anita , Kinateder, Thomas, Rajendran, Chitra, Nazet, Julian, Merkl, Rainer , Sterner, Reinhard , König, Burkhard und Kneuttinger, Andrea C. (2020) Towards Photochromic Azobenzene‐Based Inhibitors for Tryptophan Synthase. Chemistry—A European Journal 27, S. 2439-2451.

Esch, Robert und Merkl, Rainer (2020) Conserved genomic neighborhood is a strong but no perfect indicator for a direct interaction of microbial gene products. BMC Bioinformatics 21 (1), S. 1-8.

Hasler, Daniele , Meduri, Rajyalakshmi, Bąk, Maciej , Lehmann, Gerhard, Heizinger, Leonhard, Wang, Xin, Li, Zhi-Tong, Sement, François M., Bruckmann, Astrid, Dock-Bregeon, Anne-Catherine , Merkl, Rainer, Kalb, Reinhard, Grauer, Eva, Kunstmann, Erdmute, Zavolan, Mihaela, Liu, Mo-Fang, Fischer, Utz , Meister, Gunter und make_name_string expected hash reference (2020) The Alazami Syndrome-Associated Protein LARP7 Guides U6 Small Nuclear RNA Modification and Contributes to Splicing Robustness. Molecular Cell 77 (5), 1014-1031.e13. Volltext nicht vorhanden.

Kneuttinger, Andrea C. , Zwisele, Stefanie, Straub, Kristina , Bruckmann, Astrid, Busch, Florian, Kinateder, Thomas, Gaim, Barbara, Wysocki, Vicki H. , Merkl, Rainer und Sterner, Reinhard (2019) Light-Regulation of Tryptophan Synthase by Combining Protein Design and Enzymology. International Journal of Molecular Sciences 20 (20), S. 5106.

Ramchandran, Ramani, Plössl, Karolina , Straub, Kristina, Schmid, Verena, Strunz, Franziska, Wild, Jens , Merkl, Rainer, Weber, Bernhard H. F. und Friedrich, Ulrike (2019) Identification of the retinoschisin-binding site on the retinal Na/K-ATPase. PLOS ONE 14 (5), e0216320.

Ziegler, Christian, Graf, Johannes, Faderl, Stefan, Schedlbauer, Jessica, Strieder, Nicholas, Förstl, Bianca, Spang, Rainer, Bruckmann, Astrid, Merkl, Rainer , Hombach, Sonja und Kretz, Markus (2019) The long non-coding RNA LINC00941 and SPRR5 are novel regulators of human epidermal homeostasis. EMBO Rep., e46612. Volltext nicht vorhanden.

Semmelmann, Florian, Hupfeld, Enrico, Heizinger, Leonhard, Merkl, Rainer und Sterner, Reinhard (2019) A Fold-Independent Interface Residue Is Crucial for Complex Formation and Allosteric Signaling in Class I Glutamine Amidotransferases. Biochemistry 58 (22), S. 2584-2588. Volltext nicht vorhanden.

Schupfner, Michael, Straub, Kristina , Busch, Florian, Merkl, Rainer und Sterner, Reinhard (2019) Analysis of allosteric communication in a multienzyme complex by ancestral sequence reconstruction. Proceedings of the National Academy of Sciences 117 (1), S. 346-354. Volltext nicht vorhanden.

Hoffmeister, Helen, Fuchs, Andreas , Strobl, Laura, Sprenger, Frank, Gröbner-Ferreira, Regina, Michaelis, Stefanie, Hoffmann, Petra, Nazet, Julian, Merkl, Rainer und Längst, Gernot (2019) Elucidation of the functional roles of the Q and I motifs in the human chromatin-remodeling enzyme BRG1. Journal of Biological Chemistry 294 (9), S. 3294-3310. Volltext nicht vorhanden.

Semmelmann, Florian, Kabeya, Naoki , Malcicka, Miriama, Bruckmann, Astrid, Broschwitz, Bastian, Straub, Kristina, Merkl, Rainer, Monroig, Oscar, Sterner, Reinhard, Ruther, Joachim und Ellers, Jacintha (2019) Functional characterisation of two Δ12-desaturases demonstrates targeted production of linoleic acid as pheromone precursor in Nasonia. Journal of Experimental Biology. Volltext nicht vorhanden.

Kneuttinger, Andrea C. , Straub, Kristina , Bittner, Philipp, Simeth, Nadja Anita, Bruckmann, Astrid, Busch, Florian, Rajendran, Chitra, Hupfeld, Enrico, Wysocki, Vicki H., Horinek, Dominik , König, Burkhard , Merkl, Rainer und Sterner, Reinhard (2019) Light Regulation of Enzyme Allostery through Photo-responsive Unnatural Amino Acids. Cell Chemical Biology 26, S. 1-14. Volltext nicht vorhanden.

Semmelmann, Florian, Straub, Kristina, Nazet, Julian, Rajendran, Chitra, Merkl, Rainer und Sterner, Reinhard (2019) Mapping the Allosteric Communication Network of Aminodeoxychorismate Synthase. Journal of Molecular Biology 431 (15), S. 2718-2728. Volltext nicht vorhanden.

Schlee, Sandra, Straub, Kristina , Schwab, Thomas, Kinateder, Thomas, Merkl, Rainer und Sterner, Reinhard (2019) Prediction of quaternary structure by analysis of hot spot residues in protein‐protein interfaces: the case of anthranilate phosphoribosyltransferases. Proteins: Structure, Function, and Bioinformatics 87 (10), S. 815-825. Volltext nicht vorhanden.

Straub, Kristina , Linde, Mona, Kropp, Cosimo, Blanquart, Samuel, Babinger, Patrick und Merkl, Rainer (2019) Sequence selection by FitSS4ASR alleviates ancestral sequence reconstruction as exemplified for geranylgeranylglyceryl phosphate synthase. Biological Chemistry 400 (3), S. 367-381. Volltext nicht vorhanden.

Schwartz, Uwe, Németh, Attila, Diermeier, Sarah , Exler, Josef H., Hansch, Stefan, Maldonado, Rodrigo, Heizinger, Leonhard , Merkl, Rainer und Längst, Gernot (2018) Characterizing the nuclease accessibility of DNA in human cells to map higher order structures of chromatin. Nucleic Acids Research 2018 (1), S. 1-16.

Kneuttinger, Andrea C., Winter, Martin, Simeth, Nadja Anita , Heyn, Kristina, Merkl, Rainer , König, Burkhard und Sterner, Reinhard (2018) Artificial Light Regulation of an Allosteric Bienzyme Complex by a Photosensitive Ligand. ChemBioChem. Volltext nicht vorhanden.

Rustler, Karin , Mickert, Matthias J. , Nazet, Julian, Merkl, Rainer , Gorris, Hans H. und König, Burkhard (2018) Development of photoswitchable inhibitors for β-galactosidase. Organic & Biomolecular Chemistry 16, S. 7430-7437. Volltext nicht vorhanden.

Linde, Mona, Heyn, Kristina, Merkl, Rainer , Sterner, Reinhard und Babinger, Patrick (2018) Hexamerization of Geranylgeranylglyceryl Phosphate Synthase Ensures Structural Integrity and Catalytic Activity at High Temperatures. Biochemistry 57 (16), S. 2335-2348. Volltext nicht vorhanden.

Plössl, Karolina, Schmid, Verena, Straub, Kristina , Schmid, Carina, Ammon, Mirjam, Merkl, Rainer , Weber, Bernhard H. F. und Friedrich, Ulrike (2018) Pathomechanism of mutated and secreted retinoschisin in X-linked juvenile retinoschisis. Experimental Eye Research 177, S. 23-34. Volltext nicht vorhanden.

Schlee, Sandra, Klein, Thomas, Schumacher, Magdalena, Nazet, Julian, Merkl, Rainer , Steinhoff, Heinz-Jürgen und Sterner, Reinhard (2018) Relationship of Catalysis and Active Site Loop Dynamics in the (βα)8-Barrel Enzyme Indole-3-glycerol Phosphate Synthase. Biochemistry 57 (23), S. 3265-3277. Volltext nicht vorhanden.

Pfab, Alexander , Bruckmann, Astrid, Nazet, Julian, Merkl, Rainer und Grasser, Klaus D. (2018) The Adaptor Protein ENY2 Is a Component of the Deubiquitination Module of the Arabidopsis SAGA Transcriptional Co-activator Complex but not of the TREX-2 Complex. Journal of Molecular Biology 430 (10), S. 1479-1494. Volltext nicht vorhanden.

Merkl, Rainer, Löffler, Patrick , Schmitz, Samuel, Hupfeld, Enrico und Sterner, Reinhard (2017) Rosetta:MSF: a modular framework for multi-state computational protein design. PLOS Computational Biology 13 (6), e1005600.

Kandlinger, Florian, Plach, Maximilian G. und Merkl, Rainer (2017) AGeNNT: annotation of enzyme families by means of refined neighborhood networks. BMC Bioinformatics 18 (1), S. 1-13.

Merkl, Rainer, Verprinsky, Valery, Plach, Maximilian G. und Heizinger, Leonhard (2017) Assessing in silico the recruitment and functional spectrum of bacterial enzymes from secondary metabolism. BMC Evolutionary Biology 17 (36), S. 1-15.

Holinski, Alexandra, Heyn, Kristina, Merkl, Rainer und Sterner, Reinhard (2017) Combining ancestral sequence reconstruction with protein design to identify an interface hotspot in a key metabolic enzyme complex. Proteins: Structure, Function, and Bioinformatics 85 (2), S. 312-321. Volltext nicht vorhanden.

Plach, Maximilian G., Semmelmann, Florian, Busch, Florian, Busch, Markus, Heizinger, Leonhard, Wysocki, Vicki H. , Merkl, Rainer und Sterner, Reinhard (2017) Evolutionary diversification of protein–protein interactions by interface add-ons. Proceedings of the National Academy of Sciences 114 (40), E8333-E8342. Volltext nicht vorhanden.

Sørensen, Brian B., Ehrnsberger, Hans F., Esposito, Silvia, Pfab, Alexander, Bruckmann, Astrid, Hauptmann, Judith, Meister, Gunter, Merkl, Rainer , Schubert, Thomas , Längst, Gernot, Melzer, Michael , Grasser, Marion und Grasser, Klaus D. (2017) The Arabidopsis THO/TREX component TEX1 functionally interacts with MOS11 and modulates mRNA export and alternative splicing events. Plant Molecular Biology 93 (3), S. 283-298. Volltext nicht vorhanden.

Längst, Gernot, Silberhorn, Elisabeth, Schwartz, Uwe, Löffler, Patrick , Schmitz, Samuel, Symelka, Anne , Koning-Ward, Tania de und Merkl, Rainer (2016) Plasmodium falciparum Nucleosomes Exhibit Reduced Stability and Lost Sequence Dependent Nucleosome Positioning. PLoS Pathogens 12 (12), e10060.

Dueck, A., Evers, M., Henz, S. R., Unger, K., Eichner, N., Merkl, Rainer , Berezikov, E. , Engelmann, Julia C., Weigel, D. , Wenzl, S. und Meister, Gunter (2016) Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants. BMC Genomics 17 (1), S. 853.

Merkl, Rainer, Plach, Maximilian G., Reisinger, Bernd und Sterner, Reinhard (2016) Long-Term Persistence of Bi-functionality Contributes to the Robustness of Microbial Life through Exaptation. PLoS Genetics 12 (1), S. 1-14.

Busch, Florian, Rajendran, Chitra, Heyn, Kristina, Schlee, Sandra, Merkl, Rainer und Sterner, Reinhard (2016) Ancestral Tryptophan Synthase Reveals Functional Sophistication of Primordial Enzyme Complexes. Cell Chemical Biology 23 (6), S. 709-715. Volltext nicht vorhanden.

Merkl, Rainer, Žváček, Clemens, Heizinger, Leonhard und Friedrichs, Gerald (2015) An assessment of catalytic residue 3D ensembles for the prediction of enzyme function. BMC Bioinformatics 16 (359), S. 1-8.

Plach, Maximilian G., Löffler, Patrick, Merkl, Rainer und Sterner, Reinhard (2015) Conversion of Anthranilate Synthase into Isochorismate Synthase: Implications for the Evolution of Chorismate‐Utilizing Enzymes. Angewandte Chemie International Edition 54 (38), S. 11270-11274. Volltext nicht vorhanden.

Ece, Selin, Evran, Serap , Janda, Jan-Oliver, Merkl, Rainer und Sterner, Reinhard (2015) Improving thermal and detergent stability of Bacillus stearothermophilus neopullulanase by rational enzyme design. Protein Engineering, Design and Selection 28 (6), S. 147-151. Volltext nicht vorhanden.

Woriedh, Mayada, Merkl, Rainer und Dresselhaus, Thomas (2015) Maize EMBRYO SAC family peptides interact differentially with pollen tubes and fungal cells. Journal of Experimental Botany 66 (17), S. 5205-5216. Volltext nicht vorhanden.

Filarsky, Michael, Zillner, Karina, Araya, Ingrid, Villar-Garea, Ana, Merkl, Rainer , Längst, Gernot und Németh, Attila (2015) The extended AT-hook is a novel RNA binding motif. RNA Biology 12 (8), S. 864-876. Volltext nicht vorhanden.

Diermeier, Sarah Daniela Helena , Kolovos, Petros , Heizinger, Leonhard, Schwartz, Uwe, Georgomanolis, Theodore, Zirkel, Anne, Wedemann, Gero , Grosveld, Frank, Knoch, Tobias A., Merkl, Rainer, Cook, Peter R., Längst, Gernot und Papatonis, Argyris (2014) TNFα signalling primes chromatin for NF-κB binding and induces rapid and widespread nucleosome repositioning. Genome Biology 15 (12).

Janda, Jan-Oliver, Popal, Ajmal, Bauer, Jochen, Busch, Markus, Klocke, Michael, Spitzer, Wolfgang, Keller, Jörg und Merkl, Rainer (2014) H2rs: Deducing evolutionary and functionally important residue positions by means of an entropy and similarity based analysis of multiple sequence alignments. BMC Bioinformatics 15 (118).

Reisinger, Bernd, Sperl, Josef, Holinski, Alexandra , Schmid, Veronika, Rajendran, Chitra, Carstensen, Linn, Schlee, Sandra, Blanquart, Samuel, Merkl, Rainer und Sterner, Reinhard (2014) Evidence for the Existence of Elaborate Enzyme Complexes in the Paleoarchean Era. Journal of the American Chemical Society 136 (1), S. 122-129. Volltext nicht vorhanden.

Reisinger, Bernd, Kuzmanovic, Natascha, Löffler, Patrick, Merkl, Rainer , König, Burkhard und Sterner, Reinhard (2014) Exploiting Protein Symmetry To Design Light-Controllable Enzyme Inhibitors. Angewandte Chemie International Edition 53, S. 595-598. Volltext nicht vorhanden.

Hauptmann, Judith, Kater, Lukas, Löffler, Patrick, Merkl, Rainer und Meister, Gunter (2014) Generation of catalytic human Ago4 identifies structural elements important for RNA cleavage. RNA 20 (10), S. 1532-1538. Volltext nicht vorhanden.

Blaul, Birgit, Steinbauer, Robert, Merkl, Philipp , Merkl, Rainer , Tschochner, Herbert und Ruther, Joachim (2014) Oleic acid is a precursor of linoleic acid and the male sex pheromone in Nasonia vitripennis. Insect Biochemistry and Molecular Biology 51, S. 33-40. Volltext nicht vorhanden.

Loedige, Inga, Stotz, Mathias, Qamar, Saadia, Kramer, Katharina, Hennig, Janosch, Schubert, Thomas , Löffler, Patrick, Längst, Gernot, Merkl, Rainer , Urlaub, Henning und Meister, Gunter (2014) The NHL domain of BRAT is an RNA-binding domain that directly contacts the hunchback mRNA for regulation. Genes & Development 28 (7), S. 749-764. Volltext nicht vorhanden.

Busch, Florian, Rajendran, Chitra, Mayans, Olga , Löffler, Patrick, Merkl, Rainer und Sterner, Reinhard (2014) TrpB2 Enzymes are O-Phospho-l-serine Dependent Tryptophan Synthases. Biochemistry 53 (38), S. 6078-6083. Volltext nicht vorhanden.

Janda, Jan-Oliver, Meier, Andreas und Merkl, Rainer (2013) CLIPS-4D: a classifier that distinguishes structurally and functionally important residue-positions based on sequence and 3D data. Bioinformatics 29 (23), S. 3029-3035. Volltext nicht vorhanden.

Hauptmann, Judith, Dueck, Anne, Harlander, Simone, Pfaff, Janina, Merkl, Rainer und Meister, Gunter (2013) Turning catalytically inactive human Argonaute proteins into active slicer enzymes. Nature Structural & Molecular Biology 20 (7), S. 814-817. Volltext nicht vorhanden.

Dietrich, Susanne, Borst, Nadine, Schlee, Sandra, Schneider, Daniel, Janda, Jan-Oliver, Sterner, Reinhard und Merkl, Rainer (2012) Experimental assessment of the importance of amino acid positions identified by an entropy-based correlation analysis of multiple sequence alignments. Biochemistry. Volltext nicht vorhanden.

Janda, Jan-Oliver, Busch, Markus, Kück, Fabian, Porfenenko, Mikhail und Merkl, Rainer (2012) CLIPS-1D: Analysis of multiple sequence alignments to deduce for residue-positions a role in catalysis, ligand-binding, or protein structure. BMC Bioinformatics 13, S. 55.

Hain, Torsten, Ghai, Rohit , Billion, Andre, Kuenne, Carsten Tobias , Steinweg, Christiane, Izar, Benjamin, Mohamed, Walid, Mraheil, Mobarak, Domann, Eugen, Schaffrath, Silke, Kärst, Uwe, Goesmann, Alexander , Oehm, Sebastian, Pühler, Alfred, Merkl, Rainer , Vorwerk, Sonja, Glaser, Philippe, Garrido, Patricia, Rusniok, Christophe, Buchrieser, Carmen , Goebel, Werner und Chakraborty, Trinad (2012) Comparative genomics and transcriptomics of lineages I, II, and III strains of Listeria monocytogenes. BMC genomics 13 (1), S. 144.

Peterhoff, David, Zellner, Hermann, Guldan, Harald, Merkl, Rainer , Sterner, Reinhard und Babinger, Patrick (2012) Dimerization determines substrate specificity of a bacterial prenyltransferase. Chembiochem : a European journal of chemical biology 13 (9), S. 1297-1303. Volltext nicht vorhanden.

Zellner, H., Staudigel, M., Trenner, T., Bittkowski, M., Wolowski, V., Icking, C. und Merkl, Rainer (2011) Prescont: Predicting protein-protein interfaces utilizing four residue properties. Proteins. Volltext nicht vorhanden.

Ohlmann, Andreas , Merkl, Rainer und Tamm, Ernst R. (2011) Focus on Molecules: Norrin. Experimental eye research. Volltext nicht vorhanden.

Fink, Florian, Hochrein, Jochen, Wolowski, Vincent, Merkl, Rainer und Gronwald, Wolfram (2011) PROCOS: Computational analysis of protein–protein complexes. Journal of Computational Chemistry 32 (12), S. 2575-2586. Volltext nicht vorhanden.

Fischer, André, Seitz, Tobias, Lochner, Adriane, Sterner, Reinhard, Merkl, Rainer und Bocola, Marco (2011) A Fast and Precise Approach for Computational Saturation Mutagenesis and its Experimental Validation by Using an Artificial (βα)8-Barrel Protein. ChemBioChem. Volltext nicht vorhanden.

Pürzer, Andreas, Grassmann, Felix, Birzer, Dietmar und Merkl, Rainer (2011) Key2Ann: a tool to process sequence sets by replacing database identifiers with a human-readable annotation. Journal of integrative bioinformatics 8 (1). Volltext nicht vorhanden.

von Mandach, Conrad und Merkl, Rainer (2010) Genes optimized by evolution for accurate and fast translation encode in Archaea and Bacteria a broad and characteristic spectrum of protein functions. BMC genomics 11 (1), S. 617.

Felle, Max, Exler, Josef H., Merkl, Rainer , Dachauer, Karoline, Brehm, Alexander, Grummt, Ingrid und Längst, Gernot (2010) DNA sequence encoded repression of rRNA gene transcription in chromatin. Nucleic acids research 38 (16), S. 5304-5314. Volltext nicht vorhanden.

Richter, Markus, Bosnali, Manal, Carstensen, Linn, Seitz, Tobias, Durchschlag, Helmut, Blanquart, Samuel, Merkl, Rainer und Sterner, Reinhard (2010) Computational and Experimental Evidence for the Evolution of a (betaalpha)(8)-Barrel Protein from an Ancestral Quarter-Barrel Stabilised by Disulfide Bonds. J Mol Biol 398, S. 763-773. Volltext nicht vorhanden.

Richter, Markus, Bosnali, Manal, Carstensen, Linn, Seitz, Tobias, Durchschlag, Helmut, Blanquart, Samuel, Merkl, Rainer und Sterner, Reinhard (2010) Computational and Experimental Evidence for the Evolution of a (βα)8-Barrel Protein from an Ancestral Quarter-Barrel Stabilised by Disulfide Bonds. Journal of Molecular Biology 398 (5), S. 763-773. Volltext nicht vorhanden.

Wiedemann, Sonja M., Mildner, Silke N., Bönisch, Clemens, Israel, Lars, Maiser, Andreas , Matheisl, Sarah, Straub, Tobias , Merkl, Rainer , Leonhardt, Heinrich, Kremmer, Elisabeth, Schermelleh, Lothar und Hake, Sandra B. (2010) Identification and characterization of two novel primate-specific histone H3 variants, H3.X and H3.Y. The Journal of cell biology 190 (5), S. 777-791. Volltext nicht vorhanden.

Merkl, Rainer und Waack, Stephan (2009) Bioinformatik Interaktiv
Algorithmen und Praxis
2. erweiterte und neubearbeitete Auflage. Wiley-VCH, Weinheim. Volltext nicht vorhanden.

Merkl, Rainer und Wiezer, Arnim (2009) GO4genome: A prokaryotic phylogeny based on genome organisation. Journal of Molecular Evolution 68 (5), S. 550-562. Volltext nicht vorhanden.

Fischer, André, Enkler, Nils, Neudert, Gerd, Bocola, Marco, Sterner, Reinhard und Merkl, Rainer (2009) TransCent: computational enzyme design by transferring active sites and considering constraints relevant for catalysis. BMC Bioinformatics 10, S. 54.

Sterner, Reinhard, Merkl, Rainer und Raushel, Frank M. (2008) Computational design of enzymes. Chemistry & Biology 15 (5), S. 421-423. Volltext nicht vorhanden.

Sterner, Reinhard, Merkl, Rainer und Raushel, Frank M. (2008) Computational design of enzymes. Chemistry & biology 15 (5), S. 421-3. Volltext nicht vorhanden.

Merkl, Rainer und Zwick, Matthias (2007) H2r: Identification of evolutionary important residues by means of an entropy based analysis of multiple sequence alignments. BMC Bioinformatics 9, S. 151.

Merkl, Rainer (2007) Modelling the evolution of the archeal tryptophan synthase. BMC Evolutionary Biology 7, S. 59.

Fink, Florian, Merkl, Rainer und Gronwald, Wolfram (2007) Verification of protein-protein interactions by use of docking techniques. In: Hansmann, U. H. E. und Meinke, J. Mohanty S. und Zimmermann, O., (eds.) From computational biophysics to systems biology (CBSB07). Proceedings of the NIC Workshop 2007. NIC Series, 36. John von Neumann Institute for Computing, Jülich, S. 125-127. ISBN 978-3-9810843-2-0.

Merkl, Rainer (2006) A comparative categorization of protein function encoded in bacterial or archeal genomic islands. J Mol Evol 62 (1), S. 1-14. Volltext nicht vorhanden.

Merkl, Rainer (2006) AMIGOS: a method for the inspection of genomic organisation or structure and its application to characterise and dissect conserved gene arrangements. In Silico Biology 6, 0027. Volltext nicht vorhanden.

Waack, Stephan, Keller, Oliver, Asper, Roman, Brodag, Thomas, Damm, Carsten, Fricke, Wolfgang Florian , Surovcik, Katharina, Meinicke, Peter und Merkl, Rainer (2006) Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models. BMC Bioinformatics 7, S. 142.

Wiezer, Arnim und Merkl, Rainer (2005) A comparative categorization of gene flux in diverse microbial species. Genomics 86 (4), S. 462-475. Zugang zum Volltext eingeschränkt.

Helmstaedt, Kerstin, Heinrich, Gabriele, Merkl, Rainer und Braus, Gerhard H. (2004) Chorismate mutase of Thermus thermophilus is a monofunctional AroH class enzyme inhibited by tyrosine. Archives of Microbiology 181 (3), S. 195-203. Volltext nicht vorhanden.

Meinicke, Peter, Tech, Maike, Morgenstern, Burkhard und Merkl, Rainer (2004) Oligo kernels for datamining on biological sequences: a case study on prokaryotic translation initiation sites. BMC Bioinformatics 5 (1), S. 169.

Merkl, Rainer (2004) SIGI: score-based identification of genomic islands. BMC Bioinformatics 5, S. 22.

Veith, Birgit, Herzberg, Christina, Steckel, Silke, Feesche, Jörg, Maurer, Karl Heinz, Ehrenreich, Petra, Bäumer, Sebastian, Henne, Anke, Liesegang, Heiko, Merkl, Rainer, Ehrenreich, Armin und Gottschalk, Gerhard (2004) The complete genome sequence of Bacillus licheniformis DSM13, an organism with great industrial potential. Journal of Molecular Microbiology and Biotechnology 7 (4), S. 204-211. Zugang zum Volltext eingeschränkt.

Henne, Anke, Brüggemann, Holger , Raasch, Carsten, Wiezer, Arnim, Hartsch, Thomas, Liesegang, Heiko , Johann, André, Lienard, Tanja, Gohl, Olivia, Martinez-Arias, Rosa, Jacobi, Carsten, Starkuviene, Vytaute, Schlenczeck, Silke, Dencker, Silke, Huber, Robert, Klenk, Hans Peter, Kramer, Wilfried, Merkl, Rainer , Gottschalk, Gerhard und Fritz, Hans Joachim (2004) The genome sequence of the extreme thermophile Thermus thermophilus. Nature Biotechnology 22 (5), S. 547-553. Volltext nicht vorhanden.

Brüggemann, Holger, Baumer, Sebastian, Fricke, Wolfgang Florian, Wiezer, Arnim, Liesegang, Heiko, Decker, Ivona, Herzberg, Christina, Martinez-Arias, Rosa, Merkl, Rainer, Henne, Anke und Gottschalk, Gerhard (2003) The genome sequence of Clostridium tetani, the causative agent of tetanus disease. Proceedings of the National Academy of Sciences of the United States of America (PNAS) ISSN 1091-6490.

Merkl, Rainer (2003) A survey of codon and amino acid frequency bias in microbial genomes focusing on translational efficiency. Journal of Molecular Evolution 57, S. 453-466. Volltext nicht vorhanden.

Tech, Maike und Merkl, Rainer (2003) YACOP: Enhanced gene prediction obtained by a combination of existing methods. In Silico Biology 3 (4), S. 441-451. Volltext nicht vorhanden.

Wiezer, Arnim und Merkl, Rainer (2003) secureBLAST. In Silico Biology 3 (4), 0033. Volltext nicht vorhanden.

Merkl, Rainer und Waack, Stephan (2002) Bioinformatik Interaktiv. Wiley-VCH, Weinheim. ISBN 78-3-527-30662-6. Volltext nicht vorhanden.

Larbig, Karen D., Christmann, Andreas, Johann, André, Klockgether, Jens, Hartsch, Thomas, Merkl, Rainer, Wiehlmann, Lotz, Fritz, Hans Joachim und Tümmler, Burkhard (2002) Gene Islands Integrated into tRNA(Gly) Genes Confer Genome Diversity on a Pseudomonas aeruginosa Clone. Journal of Bacteriology 184 (23), S. 6665-6680.

Deppenmeier, Uwe, Johann, André, Hartsch, Thomas, Merkl, Rainer, Schmitz, Ruth A:, Martinez-Arias, Rosa, Henne, Anke, Wiezer, Arnim, Bäumer, Sebastian, Jacobi, Carsten, Brüggemann, Holger, Lienard, Tanja, Christmann, Andreas, Bömeke, Mechthild, Steckel, Silke, Bhattacharyya, Anamitra, Lykidis, Athanasios, Overbeek, Ross, Klenk, Hans Peter, Gunsalus, Robert P., Fritz, Hans Joachim und Gottschalk, Gerhard (2002) The genome of Methanosarcina mazei: evidence for lateral gene transfer between bacteria and archaea. Journal of Molecular Microbiology and Biotechnology 4 (4), S. 453-461. Volltext nicht vorhanden.

Merkl, Rainer und Fritz, Hans Joachim (1996) Statistical evidence for a biochemical pathway of natural, sequence-targeted G/C to C/G transversion mutagenesis in Haemophilus influenzae Rd. Nucleic Acids Research 24 (21), S. 4146-4151.

Gläsner, W., Merkl, Rainer, Schellenberger, V. und Fritz, Hans Joachim (1995) Substrate preferences of Vsr DNA mismatch endonuclease and their consequences for the evolution of the Escherichia coli K-12 genome. Journal of Molecular Biology 245 (1), S. 1-7. Volltext nicht vorhanden.

Gläsner, W., Merkl, Rainer, Schmidt, Sebastian, Cech, D. und Fritz, Hans Joachim (1992) Fast quantitative assay of sequence-specific endonuclease activity based on DNA sequencer technology. Biological chemistry Hoppe-Seyler 373 (12), S. 1223-1225. Volltext nicht vorhanden.

Sander, Chris, Vriend, Gerrit, Bazan, Fernando, Horovitz, Amnon, Nakamura, Haruki, Ribas, Luis, Finkelstein, Alexei V., Lockhart, Andrew, Merkl, Rainer, Perry, L. Jeanne, Emery, Stephen C., Gaboriaud, Christine, Marks, Cara, Moult, John, Verlinde, Christophe, Eberhard, Marc, Elofsson, Arne, Hubbard, Tim J. P., Regan, Lynne, Banks, Jay, Jappelli, Roberto, Lesk, Arthur M. und Tramontano, Anna (1992) Protein design on computers. Five new proteins: Shpilka, Grendel, Fingerclasp, Leather, and Aida. Proteins 12 (2), S. 105-110. Volltext nicht vorhanden.

Merkl, Rainer, Kröger, Manfred, Rice, Peter und Fritz, Hans Joachim (1992) Statistical evaluation and biological interpretation of non-random abundance in the E. coli K-12 genome of tetra- and pentanucleotide sequences related to VSP DNA mismatch repair. Nucleic Acids Research 20 (7), S. 1657-1662.

Humbel, B. M., Weber, K. und Merkl, Rainer (1991) Versatile controlling system for cryopreparation techniques in electron microscopy. J Electron Microsc Tech 17 (4), S. 450-455. Volltext nicht vorhanden.

Fisher, P. R., Merkl, Rainer und Gerisch, G. (1989) Quantitative Analysis of Cell Motility and Chemotaxis in Dictyostelium discoideum by Using an Image Processing System and a Novel Chemotaxis Chamber Providing Stationary Chemical Gradients. The Journal of Cell Biology (JCB) 108 (3), S. 973-984.

Fahn, H., Maubach, P., Merkl, Rainer, Senner, H., Hellwig, H. und Wirtzfeld, A. (1989) [Ultra-high dose thrombolytic therapy with streptokinase in peripheral venous thrombosis]. Medizinische Klinik 84 (4), 183-7, 226. Volltext nicht vorhanden.

Bozzaro, Salvatore, Merkl, Rainer und Gerisch, Günther (1987) Cell adhesion: its quantification, assay of the molecules involved, and selection of defective mutants in Dictyostelium and Polysphondylium. Methods in Cell Biology 28, S. 359-385. Volltext nicht vorhanden.

Hohmann, H. P., Bozzaro, S., Yoshida, M., Merkl, Rainer und Gerisch, G. (1987) Two-step Glycosylation of the Contact Site A Protein of Dictyostelium discoideum and Transport of an Incompletely Glycosylated Form to the Cell Surface. The Journal of Biological Chemistry 262 (34), S. 16618-16624. Volltext nicht vorhanden.

Francis, D., Toda, K., Merkl, Rainer, Hatfield, T. und Gerisch, G. (1985) Mutants of Polysphondylium pallidum altered in cell aggregation and in the expression of a carbohydrate epitope on cell surface glycoproteins. EMBO Journal 4 (10), S. 2525-2532.

Noegel, A., Harloff, C., Hirth, P., Merkl, Rainer, Modersitzki, M., Stadler, J., Weinhart, U., Westphal, M. und Gerisch, G. (1985) Probing an adhesion mutant of Dictyostelium discoideum with cDNA clones and monoclonal antibodies indicates a specific defect in the contact site A glycoprotein. EMBO Journal 4 (13B), S. 3805-3810.

Toda, Katsumi, Bozzaro, Salvatore, Lottspeich, Friedrich, Merkl, Rainer und Gerisch, Günther (1984) Monoclonal anti-glycoprotein antibody that blocks cell adhesion in Polysphondylium pallidum. European Journal Of Biochemistry 140 (1), S. 73-81. Volltext nicht vorhanden.

Heumann, R., Schwab, M., Merkl, Rainer und Thoenen, H. (1984) Nerve growth factor-mediated induction of choline acetyltransferase in PC12 cells: evaluation of the site of action of nerve growth factor and the involvement of lysosomal degradation products of nerve growth factor. European Journal Of Neuroscience 4 (12), S. 3039-3050. Volltext nicht vorhanden.

Häder, D. P., Claviez, M., Merkl, Rainer und Gerisch, G. (1983) Responses of Dictyostelium discoideum amoebae to local stimulation by light. Cell Biology International Reports 7 (8), S. 611-616. Volltext nicht vorhanden.

Ochiai, H., Stadler, J., Westphal, M., Wagle, G., Merkl, Rainer und Gerisch, G. (1982) Monoclonal antibodies against contact sites A of Dictyostelium discoideum: detection of modifications of the glycoprotein in tunicamycin-treated cells. EMBO Journal 1 (8), S. 1011-1016.

Ochiai, H., Schwarz, H., Merkl, Rainer, Wagle, G. und Gerisch, G. (1982) Stage-specific antigens reacting with monoclonal antibodies against contact site A, a cell-surface glycoprotein of Dictyostelium discoideum. Cell Differentiation 11 (1), S. 1-13. Zugang zum Volltext eingeschränkt.