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Offen N, Filatova A, Nuber UA (2023)Enrichment of FGF8-expressing cells from neurally induced human pluripotent stem cell cultures. Stem Cell Reports

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Kraus L, Duchardt-Ferner E, Bräuchle E, Fürbacher S, Kelvin D, Marx H, Boussebayle A, Maurer LM, Bofill-Bosch C, Wöhnert J, Suess B (2023) Development of a novel tobramycin dependent riboswitch Nucleic Acids Res. 2023 Oct 4:gkad767

Schoenfeld K, Harwardt J, Habermann J, Elter A, Kolmar H (2023) Conditional activation of an anti-IgM antibody-drug conjugate for precise B cell lymphoma targeting. Front Immunol 14:1258700

Bitsch P, Baum ES, Beltrán Hernández I, Bitsch S, Harwood J, Oliveira S, Kolmar H (2023) Penetration of Nanobody-Dextran Polymer Conjugates through Tumor Spheroids. Pharmaceutics 15(10):2374

Lerma Romera JA, Meyners C, Rupp N, Hausch F, Kolmar H (2023) A protein engineering approach towards understanding FKBP51 conformational dynamics and mechanisms of ligand binding. Protein Eng Des Sel doi: 10.1093/protein/gzad014

Kemp P, weber W, Desczyk C, Kaufmann M, Panthel J, Wörmann J, Stein V (2023) Dissecting the Permeability of the Escherichia coli Cell Envelope to a Small Molecule Using Tailored Intensiometric Fluorescent Protein Sensors ACS Omega 42:39562–39569

Sinzger-D’Angelo M, Startceva S& Koeppl H (2023) Bye bye, linearity, bye: quantification of the mean for linear CRNs in a random environment Journal of Mathematical Biology 87:43

Minagawa J, Dann M (2023) Extracellular CahB1 from Sodalinema gerasimenkoae IPPAS B-353 Acts as a Functional Carboxysomal β-Carbonic Anhydrase in Synechocystis sp. PCC6803 Plants 12(2):265

Engelmann N, Schwarz T, Kubaczka E, Hochberger C, Koeppl H (2023) Context-Aware Technology Mapping in Genetic Design Automation ACS Synthetic Biology, S. 446-459:2161-5063

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Fritschen A, Acedo Mestre M, Scholpp S, Blaeser A (2023) Influence of the physico-chemical bioink composition on the printability and cell biological properties in 3D-bioprinting of a liver tumor cell line Frontiers in Bioengineering and Biotechnology 11

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Klein T, Funke F, Rossbach O, Lehmann G, Vockenhuber M, Medenbach J, Suess B, Meister G, Babinger P (2023) Investigating the Prevalence of RNA-Binding Metabolic Enzymes in E. coli. Int J Mol Sci. 16;24(14):11536

Kelvin D, Suess B (2023) Tapping the potential of synthetic riboswitches: reviewing the versatility of the tetracycline aptamer. RNA Biol. 20(1):457-468

Krumbach JH, Bauer D, Sharifzadeh AS, Saponaro A, Lautenschläger R, Lange K, Rauh O, DiFrancesco D, Moroni A, Thiel G, Hamacher K (2023) Alkali metal cations modulate the geometry of different binding sites in HCN4 selectivity filter for permeation or block. J Gen Physiol. 2;155(10):e202313364

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Lerma Romero JA, Kolmar H (2023) Accessing Transient Binding Pockets by Protein Engineering and Yeast Surface Display Screening. Methods Mol Biol 2681:249-274

Yanakieva D, Vollmer L, Kumar S, Becker S, Toleikis L, Pekar L, Kolmar H, Zielonka S, Krah S (2023) One-Pot Droplet RT-OE-PCR for the Generation of Natively Paired Antibody Immune Libraries. Methods Mol Biol 2681:213-229

Deutscher R, Karagöz MS, Purder PL, Kolos J, Meyners C, Sugiarto WO, Krajczy P, Tebbe F, Geiger T, Ünal C, Hellmich U, Steinert M, Felix Hausch F (2023) Bicyclic FKBP ligands inhibit Legionella pneumophila infection by LpMipdependent and LpMip independent mechanisms ChemBioChem e202300442

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Harwardt J, Carrara SC, Bogen JP, Schoenfeld K, Grzeschik J, Hock B, Kolmar H (2023) Generation of a symmetrical trispecific NK cell engager based on a two-in-one antibody Front Immunol 14:1170042

Kunzmann P, Müller TD, Greil M, Krumbach JH, Anter JM, Bauer D, Islam F, Hamacher K (2023) Biotite: New tools for a versatile Python bioinformatics library BMC Bioinformatics 24:236

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Bräuer P, Muench F, Stojkovikj S, Gupta S, Mayer M, Ensinger W, Roth C, El-Nagar GA (2022)Shape-Controlled Electroless Plating of Hetero-Nanostructures: AgCu-and AgNi-Decorated Ag Nanoplates on Carbon Fibers as Catalysts for the Oxygen Evolution ACS Appl. Nano Mater. 5, 8 360, 119592

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Hoffmann MD; Mathony J, Upmeier zu Belzen J, Hartevald Z, Aschenbrenner S, Stengl C, Grimm D, Correira BE, Eils R, Niopek D (2021) Optogenetic control of Neisseria meningitidis Cas9 genome editing using an engineered, light-switchable anti-CRISPR protein Nucleic Acids Research 49(5) e29

Rauh O, Kukovetz K, Winterstein L, Introini B, Thiel G (2021) Combining in vitro translation with nanodisc technology and functional reconstitution of channels in planar lipid bilayers Methods in Enzymology 652:293-318

Bogen JP, Carrara SY, Fiebig D, Grzeschik J, Hock B, Kolmar H (2021) Design of a Trispecific Checkpoint Inhibitor and Natural Killer Cell Engager Based on a 2 + 1 Common Light Chain Antibody Architecture Front Immunol 12:669496

Liebich VJ, Avrutina O, Habermann J, Hillscher LM, Langhans M, Meckel T, Biesalski M, Kolmar H (2021) Toward Fabrication of Bioactive Papers: Covalent Immobilization of Peptides and Proteins Biomacromolecules 22(7):2954-2962

Saponaro A, Bauer D, Giese H, Swuec P, Porro A, Gasparri F, Sharifzadeh AS, Chaves-Sanjuan A, Alberio L, Parisi G, Cerutti G, Clarke OB, Hamacher K, Colecraft HM, Mancia F. Hendrickson WA, Siegelbaum SA, DiFrancesco D, Bolognesi M, Thiel G, Santoro B, Moroni A (2021) Gating movements and ion permeation in HCN4 pacemaker channels Molecular Cell 81(14):2929-2943

Kaiser C, Schneider J, Groher F, Suess B, Wachtveitl J (2021) What defines a synthetic riboswitch? – Conformational dynamics of ciprofloxacin aptamers with similar binding affinities but varying regulatory potentials Nucleic Acids Research 49(7):3661-3671

Born J, Weitzel K, Suess B, Pfeifer F (2021) A Synthetic Riboswitch to Regulate Haloarchaeal Gene Expression Front Microbiol 12:696181

Worring A, Mayer BE, Hamacher K (2021) Genetic algorithm niching by (Quasi-)infinite memory GECCO '21: Proceedings of the Genetic and Evolutionary Computation Conference 296–304

Prangemaier T, Reich C, Wildner C, Koeppl H (2021) Multi-StyleGAN: Towards Image-Based Simulation of Time-Lapse Live-Cell Microscopy Medical Image Computing and Computer Assisted Intervention (MICCAI)

Karava M, Gockel P, Kabisch J (2021) Bacillus subtilis spore surface display of photodecarboxylase for the transformation of lipids to hydrocarbons Sustainable Energy Fuels 5:1727-1733

Ensinger W (2021) A New Generation of Biomolecular Sensors Based on Polymeric Ion Conducting Nanopores for Medical Diagnostics (wird in neuem Tab geöffnet)Proceedings of the 6th World Congress on Recent Advances in Nanotechnology (RAN'21) Paper No. NDDTE 106

Nasir S, Ali M, Ramirez P, Froehlich K, Cervera J, Mafe S, Ensinger W (2021) Ionic conduction through single-pore and multipore polymer membranes in aprotic organic electrolytes Journal of Membrane Science 635:119505

Duznovic I, Gräwe A, Weber W, Müller LK, Ali M, Ensinger W, Tietze A, Stein V (2021) Ultrasensitive and Selective Protein Recognition with Nanobody-Functionalized Synthetic Nanopores Small 2101066

Glinkowska M, Waldminghaus T, Riber L (2021) Editorial: Bacterial Chromosomes Under Changing Environmental Conditions Front Microbiol 12:633466

Zimmermann M, Nguyen M, Schultheiss CM; Kolmar H, Zimmer A (2021) Use of 5-Thio-L-Fucose to modulate binding affinity of therapeutic proteins Biotechnology and Bioengineering 118(5):1818-1831

John D, Stanzel M, Andrieu-Brunsen A (2021) Surface Plasmons and Visible Light Iniferter Initiated Polymerization for Nanolocal Functionalization of Mesoporous Separation Layers Advanced Functional Materials 31(20):2009732

Hillscher LM, Liebich VJ, Avrutina O, Biesalski M, Kolmar H (2021) Functional paper-based materials for diagnostics ChemTexts 7(14)

Izdebska-Podsiadly J, Dörsam E (2021) Storage stability of the oxygen plasma-modified PLA film Bulletin of Material Science 44(79)

Elter A, Bock T, Spiehl D, Russo G, Hinz SC, Bitsch S, Baum E, Langhans M, Meckel T, Dörsam E, Kolmar H, Schwall G (2021) Carbohydrate binding module-fused antibodies improve the performance of cellulose-based lateral flow immunoassays Scientific Reports 11(7880)

Schmidt M, Hamacher K (2021) Identification of biophysical interaction patterns in direct coupling analysis Phys. Rev. E 103, 042418

Ramirez P, Prerz-Grau JJ, Cervera J, Nasir S, Ali M, Ensinger W, Mafe S (2021) Negative differential resistance and threshold-switching in conical nanopores with KF solutions Appl Phys Lett 118:181903

Baumann L, Bruder S, Kabisch J, Boles E, Oreb M (2021) High-Throughput Screening of an Octanoic Acid Producer Strain Library Enables Detection of New Targets for Increasing Titers in Saccharomyces cerevisiae ACS Synth Biol 10(5):1077-1086

Carrara SC, Fiebig D, Bogen JP, Grzeschik J, Hock B, Kolmar H (2021) Recombinant Antibody Production Using a Dual-Promoter Single Plasmid System Antibodies 10(2):18

Engel AJ, Kithil M, Langhans M, Rauh O, Cartolano M, van Etten JL, Moroni A, Thiel G (2021) Codon Bias Can Determine Sorting of a Potassium Channel Protein Cells 10(5):1128

Ulrich N, Spende A, Burr L, Sobel N, Schubert I, Hess C, Trautmann C, Toimil-Molares ME (2021) Conical Nanotubes Synthesized by Atomic Layer Deposition in Etched Ion-Track Nanochannels Nanomaterials 11, 1874;


Kukovetz K, Hertel B, Schvarcz CR, Saponaro A, Manthey M, Burk U, Greiner T, Steward GF, Van Etten JL, Moroni A, Thiel G, Rauh O (2020) A Functional K+ Channel from Tetraselmis Virus 1, a Member of the Mimiviridae. Viruses 12(10):1107.

Aschenbrenner S, Kallenberger S, Hoffmann MD, Huck A, Eils R, Niopek D (2020) Coupling Cas9 to artificial inhibitory domains enhances CRISPR-Cas9 target specificity. Sci Adv 6(6):eaay018

Benary M, Bohn S, Lüthen M, Nolis IK, Blüthgen N, Loewer A (2020) Disentangling Pro-mitotic Signaling during Cell Cycle Progression using Time-Resolved Single-Cell Imaging. Cell Reports 31, 107514.

Engelmann N, Linzner D, Koeppl H (2020) Continuous-time Bayesian networks with clocks. Proceedings of the 37th International Conference on Machine Learning (ICML), 119:2912-2921.

Macarrón Palacios A, Grzeschik J, Deweid L, Krah S, Zielonka S, Rösner T, Peipp M, Valerius T, Kolmar H (2020) Specific Targeting of Lymphoma Cells Using Semisynthetic Anti-Idiotype Shark Antibodies, Front Immunol., 11: 560244.

Drossel B (2020) What condensed matter physics and statistical physics teach us about the limits of unitary time evolution. Quantum Studies: Mathematics and Foundations 7, 217-231.

Khalil A, Zimmermann M, Bell AK, Kunz U, Hardt S, Kleebe HJ, Stark RW, Stephan P, Andrieu-Brunsen A (2020) Insights into the interplay of wetting and transport in mesoporous silica films J. Colloid Interf. Sci., 560, 369.

Brilmayer R, Kübelbeck S, Khalil A, Brodrecht M, Kunz U, Kleebe HJ, Buntkowsky G, Baier G, Andrieu-Brunsen A (2020) Influence of nanoconfinement on the pKa of polyelectrolyte functionalized silica mesopores, Adv. Mat. Interf., 1901914.

Konrath F, Mittermeier A, Cristiano E, Wolf J and Loewer A (2020) A systematic approach to decipher crosstalk in the p53 signaling pathway using single cell dynamics. PLoS Comput. Biol. 16, e1007901.

Gräwe A., Ranglack J, Weber W and Stein V (2020a) Engineering artificial signalling functions with proteases. Current Opinion in Biotechnology 63, 1–7.

Zimmermann M, Kolmar H, Zimmer A (2020) S-Sulfocysteine – Investigation of cellular uptake in CHO cells Journal of Biotechnology 335:27-38

Fritschen A, Blaeser A (2020) Biosynthetic, biomimetic, and self-assembled vascularized Organ-on-a-Chip systems Biomaterials 268:120556

Engel AJ, Winterstein L, Kithil M, Langhans M, Moroni A, Thiel G (2020) Light-Regulated Transcription of a Mitochondrial-Targeted K+ Channel Cells 9(11):2507

Mathony J, Niopek D (2020) Enlightening Allostery: Designing Switchable Proteins by Photoreceptor Fusion Advanced Biology 5(5):2000181

Brilmayer R, Förster C, Zhao L, Andrieu-Brunsen A (2020) Recent trends in nanopore polymer functionalization Current Opinion in Biotechnology 63:200-209

Sozhamannan S, Waldminghaus T (2020) Exception to the exception rule: synthetic and naturally occurring single chromosome Vibrio cholerae Environmental Microbiology 22(10):4123-4132

Wilkens D, Meusinger R, Hein S, Simon J (2020) Sequence analysis and specificity of distinct types of menaquinone methyltransferases indicate the widespread potential of methylmenaquinone production in bacteria and archaea Environmental Microbiology 23(3):1407-1421

Hoff J, Daniel B, Stukenberg D, Thuonyi BW, Waldminghaus T, Fritz G (2020) Vibrio natriegens: an ultrafast-growing marine bacterium as emerging synthetic biology chassis Environmental Microbiology 22(10):4394-4408

Mathony J, Harteveld Z, Schmelas C, Upmeier Zu Belzen J, Aschenbrenner S, Sun W, Hoffmann MD, Stengl C, Scheck A, Georgeon S, Rosset S, Wang Y, Grimm D, Eils R, Niopek D (2020) Computational design of anti-CRISPR proteins with improved inhibition potency. Nat. Chem. Biol. 16, 725–730.

Doçi G, Fuchs L, Kharbanda Y, Schickling P, Zulkower V, Hillson N, Oberortner E, Swainston N, Kabisch J (2020) DNA Scanner: a web application for comparing DNA synthesis feasibility, price, and turnaround time across vendors Synthetic Biology, ysaa011,

Li Y, Rehbock C, Nachev M, Stamm J, Sures B, Blaeser A, Barcikowski S (2020) Matrix-specific mechanism of Fe ion release from laser-generated 3D-printable nanoparticle-polymer composites and their protein adsorption properties Nanotechnology 31(40):405703. doi: 10.1088/1361-6528/ab94da

Schäfer B, Emonts C, Glimpel N, Ruhl T, Obrecht AS, Jockenhoevel S, Gries T, Beier JP, Blaeser A (2020) Warp-Knitted Spacer Fabrics: A Versatile Platform to Generate Fiber-Reinforced Hydrogels for 3D Tissue Engineering Materials (Basel) 13(16):E3518. doi: 10.3390/ma13163518

Kunzmann, P.,Mayer, B.E. Hamacher, K. (2020) Substitution matrix based color schemes for sequence alignment visualization BMC Bioinformatics 21(209)

Brunner JD, Jakob RP, Schulze T, Neldner Y, Moroni A, Thiel G, Maier S, Schenck S (2020) Structural basis for ion selectivity in TMEM175 K+ channels eLIFE

Herzog N, Hübner H, Rüttiger C, Gallei M, Andrieu-Brunsen A (2020) Functional Metalloblock Copolymers for the Preparation and In Situ Functionalization of Porous Silica Films Langmuir

Tran MH, Brilmayer R, Liu L, Zhuang HL, Hess C, Andrieu-Brunsen A, Birkel CS (2020) Synthesis of a Smart Hybrid MXene with Switchable Conductivity for Temperature Sensing ACS Appl. Nano Mater

Prangemeier T, Lehr F, Schoeman RM, Koeppl H (2020) Microfluidic platforms for the dynamic characterisation of synthetic circuitry Current Opinion in Biotechnology 63:167-176

Müller LK, Duznovic I, Tietze D, Weber W, Ali M, Stein V, Ensinger W, Tietze A (2020) Ultrasensitive and selective copper (II) detection: introducing a bioinspired and robust sensor Chem. Eur. J. 10.1002/chem.202001160

Bernhard M, Diefenbach M, Biesalski M, Laube B (2020) Electrical Sensing of Phosphonates by Functional Coupling of Phosphonate Binding Protein PhnD to Solid-State Nanopores ACS Sens 5(1) 234-241

Ochs M, Maohammadi R, Vogel N, Andrieu-Brunsen A (2020) Wetting‐Controlled Localized Placement of Surface Functionalities within Nanopore Small 1906463

Grau FX, Jaeger J, Groher F, Suess B, Muller YA (2020) The complex formed between a synthetic RNA aptamer and the transcription repressor TetR is a structural and functional twin of the operator DNA–TetR regulator complex Nucleic Acids Research, gkaa083

Gräwe A, Ranglack J, Weyrich A, Stein V (2020) iFLinkC: an iterative functional linker cloning strategy for the combinatorial assembly and recombination of linker peptides with functional domains Nucleic Acids Research, gkz1210,

Sheludko YV, Volk J, Brandt W, Warzecha H (2020) Expanding the Diversity of Plant Monoterpenoid Indole Alkaloids Employing Human Cytochrome P450 3A4 ChemBioChem 21(14):1976-1980

Engel F, Ossipova E, Jakobsen P-J, Vockenhuber M-P, Suess B (2020) sRNA scr5239 Involved in Feedback Loop Regulation of Streptomyces coelicolor Central Metabolism Front Microbiol 10:3121

Jenewein T, Kanner SA, Bauer D, Hertel B, Colecraft HM; Moroni A, Thiel G, Kauferstein S (2020) The mutation L69P in the PAS domain of the hERG potassium channel results in LQTS by trafficking deficiency Channels 14(1):163-174

Baalmann M, Neises L, Bitsch S, Schneider H, Deweid L, Werther P, Ilkenhans N, Wolfring M, Ziegler MJ, Wilhelm J, Kolmar H, Wombacher R (2020) A Bioorthogonal Click Chemistry Toolbox for Targeted Synthesis of Branched and Well-Defined Protein–Protein Conjugates Angewandte Chemie International Edition 59(31):12885-12839

Sperlea T, Muth L, Martin R, Weigel C, Waldminghaus T, Heider D (2020) gammaBOriS: Identification and Taxonomic Classification of Origins of Replication in Gammaproteobacteria using Motif-based Machine Learning Scientific Reports 10:6727

Söhling N, Neijhoft J, Nienhaus V, Acker V, Harbig J, Menz F, Ochs J, Verboket RD, Ritz U, Blaeser A, Dörsam E, Frank J, Marzi I, Henrich D (2020) 3D-Printing of Hierarchically Designed and Osteoconductive Bone Tissue Engineering Scaffolds Materials 13(8):1836

Duarte Campas DF, Lindsay CD, Roth JG, LeSavage BL, Seymour AJ, Krajina BA, Ribeiro R, Costa PF, Blaeser A, Heilshorn SC (2020) Bioprinting Cell- and Spheroid-Laden Protein-Engineered Hydrogels as Tissue-on-Chip Platforms Front Bioeng Biotechnol 8:374

Basavarajappa D, Uebbing S, Kreiss M, Lukic A, Suess B, Steinhilber D, Samuelsson B, Rådmark O (2020) Dicer up-regulation by inhibition of specific proteolysis in differentiating monocytic cells PNAS 117(15):8573-8583

Murry CR, Agarkova IV, Ghosh JS, Fitzgerald FC, Carlson RM, Hertel B, Kukovetz K, Rauh O, Thiel G, Van Etten JL (2020) Genetic Diversity of Potassium Ion Channel Proteins Encoded by Chloroviruses That Infect Chlorella heliozoae Viruses 12(6):678

Tran NT, Kaldenhoff R (2020) Metabolic engineering of ketocarotenoids biosynthetic pathway in Chlamydomonas reinhardtii strain CC-4102 Scientific Reports 10(1):10688

Yanakieva D, Elter A, Bratsch J, Friedrich K, Becker S, Kolmar H (2020) FACS-Based Functional Protein Screening via Microfluidic Co-encapsulation of Yeast Secretor and Mammalian Reporter Cells Scientific reports 10:10182

Fröhlich K, Nasir S, Ali M, Ramirez P, Cervera J, Mafe S, Ensinger W (2020) Fabrication of soft-etched nanoporous polyimide membranes for ionic conduction and discrimination Materials 617:118633

Sinzinger M, Gehri M, Koeppl H (2020) Poisson channel with binary Markov input and average sojourn time constraint S. 2873-2878, ISIT'20 – International Symposium on Information Theory, virtual online conference, 21.-26. June 2020, ISBN 978-1-7281-6433-5

Bogen JP, Storka J, Yanakieva D,Fiebig D, Grzeschik J, Hock B, Kolmar H (2020) Isolation of Common Light Chain Antibodies from Immunized Chickens Using Yeast Biopanning and Fluorescence-Activated Cell Sorting Biotechnology Journal 16(3):2000240

Sauer HM, Braig F, Dörsam E (2020) Leveling and Drying Dynamics of Printed Liquid Films of Organic Semiconductor Solutions in OLED/OPV Applications Advanced Materials Technologies 6(2):2000160

Prangemeier T, Reich C, Koeppl H (2020) Attention-Based Transformers for Instance Segmentation of Cells in Microstructures (wird in neuem Tab geöffnet) IEEE, International Conference on Computational Intelligence in Bioinformatics and Computational Biology, virtual Conference, October 27-29

Prangemeier T, Wildner C, Francani AO, Reich C, Koeppl H (2020) Multiclass Yeast Segmentation in Microstructured Environments with Deep Learning (wird in neuem Tab geöffnet) IEEE, International Conference on Computational Intelligence in Bioinformatics and Computational Biology, virtual Conference, October 27-29

Busche JF, Möller S, Klein A-K, Stehr M, Purr F, Bassu M, Burg TP, Dietzel A (2020) Nanofluidic Immobilization and Growth Detection of Escherichia coli in a Chip for Antibiotic Susceptibility Testing Biosensors 10(10):135

Bernhard M, Laube B (2020) Thermophoretic analysis of ligand-specific conformational states of the inhibitory glycine receptor embedded in copolymer nanodiscs Scientific Reports 10:16569

Ulitzka M, Carrara S, Grzeschik J, Kornmann H, Hock B, Kolmar H (2020) Engineering therapeutic antibodies for patient safety: tackling the immunogenicity problem Protein Engineering, Design and Selection 33:gzaa025

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