Biology

Cells and multicellular organisms have long been recognized as sophisticated information processors. They sense and integrate external signals in order to adapt to environmental changes and to communicate with other cells and organisms. To reach decisions, they process symbolic information according to logical rules, and as such can be compared to man-made computers. However, natural systems differ in design and function: biological systems are distributed probabilistic devices which compute information at multiple levels, ranging from single proteins to cellular networks. These features endow biological systems with superior robustness of function, conferring on them in particular an exceptional adaptability and the capacity to either exploit or filter out noise. Therefore, biological systems represent a rich source of inspiration for the future development of novel soft- and hardware architectures, as exemplified by biology-inspired neural network-based machine learning. However, the prerequisite is to fully understand the molecular and cellular hardware, the biological computational rules and the underlying algorithms. With recent advances in knowledge and technology in various key areas, such as the structure of the genome and proteome, as well as the availability of advanced imaging modalities and computational tools, we are now in the position to address this monumental challenge. Within this context, the aim is to decipher the molecular mechanisms of biological information processing in cells and cellular networks, and to bring this knowledge to the first proof-of-principle applications.

Publication list

2024

Insights into the mechanisms of neuron generation and specification in the zebrafish ventral spinal cord
Cucun, G.; Köhler, M.; Pfitsch, S.; Rastegar, S.
2024. The FEBS Journal, 291 (4), 646–662. doi:10.1111/febs.16913

TRIM11 expression in non-small cell lung cancer is associated with poor prognosis
Kuempers, C.; Jagomast, T.; Paulsen, F. O.; Heidel, C.; Bohnet, S.; Schierholz, S.; Reischl, M.; Dreyer, E.; Olchers, T.; Reck, M.; Kirfel, J.; Perner, S.
2024. Histology and histopathology, 39, 437–446. doi:10.14670/HH-18-647

ObiWan-Microbi: OMERO-based integrated workflow for annotating microbes in the cloud
Seiffarth, J.; Scherr, T.; Wollenhaupt, B.; Neumann, O.; Scharr, H.; Kohlheyer, D.; Mikut, R.; Nöh, K.
2024. SoftwareX, 26, Article no: 101638. doi:10.1016/j.softx.2024.101638

Surface-Patterned DNA Origami Rulers Reveal Nanoscale Distance Dependency of the Epidermal Growth Factor Receptor Activation
Mayer, I.; Karimian, T.; Gordiyenko, K.; Angelin, A.; Kumar, R.; Hirtz, M.; Mikut, R.; Reischl, M.; Stegmaier, J.; Zhou, L.; Ma, R.; Nienhaus, G. U.; Rabe, K. S.; Lanzerstorfer, P.; Domínguez, C. M.; Niemeyer, C. M.
2024. Nano Letters, 24 (5), 1611–1619. doi:10.1021/acs.nanolett.3c04272

Reversible Influence of Hemipiperazine Photochromism on the Early Development of Zebrafish Embryo
Seliwjorstow, A.; Takamiya, M.; Rastegar, S.; Pianowski, Z.
2024. ChemBioChem, e202400143. doi:10.1002/cbic.202400143

Context-aware composition of agent policies by Markov decision process entity embeddings and agent ensembles
Merkle, N.; Mikut, R.
2024. Semantic Web. doi:10.3233/SW-233531

Rapid Flow Behavior Modeling of Thermal Interface Materials Using Deep Neural Networks
Baeuerle, S.; Gebhardt, M.; Barth, J.; Mikut, R.; Steimert, A.
2024. IEEE Access, 12, 17782–17792. doi:10.1109/ACCESS.2024.3359169

Entomoscope: An Open-Source Photomicroscope for Biodiversity Discovery
Wührl, L.; Rettenberger, L.; Meier, R.; Hartop, E.; Graf, J.; Pylatiuk, C.
2024. IEEE Access, 12, 11785–11794. doi:10.1109/ACCESS.2024.3355272

Comparison of Decellularized Human Dermal Scaffolds versus Bovine Collagen/Elastin Matrices for Engineering of Soft-Tissue Flaps
Falkner, F.; Mayer, S. A.; Heuer, M.; Brune, J.; Helt, H.; Bigdeli, A. K.; Dimmler, A.; Heimel, P.; Thiele, W.; Sleeman, J. P.; Bergmeister, H.; Schneider, K. H.; Kneser, U.; Thomas, B.
2024. Plastic and Reconstructive Surgery, 153 (1), 130 – 141. doi:10.1097/PRS.0000000000010511

Probe-free optical chromatin deformation and measurement of differential mechanical properties in the nucleus
Seelbinder, B.; Wagner, S.; Jain, M.; Erben, E.; Klykov, S.; Stoev, I. D.; Krishnaswamy, V. R.; Kreysing, M.
2024. eLife, 13. doi:10.7554/eLife.76421

Caveolae disassemble upon membrane lesioning and foster cell survival
Štefl, M.; Takamiya, M.; Middel, V.; Tekpınar, M.; Nienhaus, K.; Beil, T.; Rastegar, S.; Strähle, U.; Nienhaus, G. U.
2024. iScience, Art.-Nr.: 108849. doi:10.1016/j.isci.2024.108849

CoNIC Challenge: Pushing the frontiers of nuclear detection, segmentation, classification and counting
Graham, S.; Vu, Q. D.; Jahanifar, M.; Weigert, M.; Schmidt, U.; Zhang, W.; Zhang, J.; Yang, S.; Xiang, J.; Wang, X.; Rumberger, J. L.; Baumann, E.; Hirsch, P.; Liu, L.; Hong, C.; Aviles-Rivero, A. I.; Jain, A.; Ahn, H.; Hong, Y.; Azzuni, H.; Xu, M.; Yaqub, M.; Blache, M.-C.; Piégu, B.; Vernay, B.; Scherr, T.; Böhland, M.; Löffler, K.; Li, J.; Ying, W.; Wang, C.; Snead, D.; Raza, S. E. A.; Minhas, F.; Rajpoot, N. M.
2024. Medical Image Analysis, 92, Article no: 103047. doi:10.1016/j.media.2023.103047

On the reproducibility of extrusion-based bioprinting: round robin study on standardization in the field
Grijalva Garces, D.; Strauß, S.; Gretzinger, S.; Schmieg, B.; Jüngst, T.; Groll, J.; Meinel, L.; Schmidt, I.; Hartmann, H.; Schenke-Layland, K.; Brandt, N.; Selzer, M.; Zimmermann, S.; Koltay, P.; Southan, A.; Tovar, G. E. M.; Schmidt, S.; Weber, A.; Ahlfeld, T.; Gelinsky, M.; Scheibel, T.; Detsch, R.; Boccaccini, A. R.; Naolou, T.; Lee-Thedieck, C.; Willems, C.; Groth, T.; Allgeier, S.; Köhler, B.; Friedrich, T.; Briesen, H.; Buchholz, J.; Paulus, D.; von Gladiss, A.; Hubbuch, J.
2024. Biofabrication, 16 (1), Art.-Nr.: 015002. doi:10.1088/1758-5090/acfe3b

Exploring the Antibacterial Effects of Ozonated Oils in Medicine: A Study on Escherichia coli Inhibition
Petani, L.; Jung, A.-M.; Frietsch Musulin, R.-R.; Sturm, G.; Kaster, A.-K.; Pylatiuk, C.
2024. Ozone: Science & Engineering, 46 (2), 174–181. doi:10.1080/01919512.2023.2233746

2023

Congratulations to Prof. em. Garth L. Nicolson – co-founder of Clinical and Experimental Metastasis
Haier, J.; Sleeman, J.
2023. Clinical & Experimental Metastasis, 40 (6), 443–444. doi:10.1007/s10585-023-10239-1

Chromatic Swept-Source Laser Scanning - Konzept für eine zellauflösende konfokale Laserspaltlampe? [Chromatic Swept-Source Laser Scanning - Concept for a Cell-Resolving Confocal Laser Slit Lamp?]
Sperlich, K.; Bohn, S.; Reichert, K.-M.; Stolz, H.; Guthoff, R. F.; Stachs, O.; Allgeier, S.
2023. Klinische Monatsblätter für Augenheilkunde, 240 (12), 1375 – 1382. doi:10.1055/a-2184-9382

An AI-based segmentation and analysis pipeline for high-field MR monitoring of cerebral organoids
Deininger, L.; Jung-Klawitter, S.; Mikut, R.; Richter, P.; Fischer, M.; Karimian-Jazi, K.; Breckwoldt, M. O.; Bendszus, M.; Heiland, S.; Kleesiek, J.; Opladen, T.; Hübschmann, O. K.; Hübschmann, D.; Schwarz, D.
2023. Scientific Reports, 13, 21231. doi:10.1038/s41598-023-48343-7

TRIM25 targets p300 for degradation
Elabd, S.; Pauletto, E.; Solozobova, V.; Eickhoff, N.; Padrao, N.; Zwart, W.; Blattner, C.
2023. Life Science Alliance, 6 (12), e202301980. doi:10.26508/lsa.202301980

Interlayer, gallery-engineered graphene oxide using selective protection of mono-Boc-ethylenediamine as anode for sodium ion batteries
Thushara, K. M.; Ponraj, M. R.; Mandal, S.; Peng, X.; Grage, S. L.; Kang, J. W.; Venkatesan, R.; Thavasi, V.; Kannan, A. M.; Liepmann, D.; Pillai, V. K.; Bhagavathsingh, J.
2023. Journal of Energy Storage, 73 (Part D), Art.-Nr.: 109237. doi:10.1016/j.est.2023.109237

Estrogenic regulation of claudin 5 and tight junction protein 1 gene expression in zebrafish: A role on blood-brain barrier?
Pellegrini, E.; Fernezelian, D.; Malleret, C.; Gueguen, M. M.; Patche-Firmin, J.; Rastegar, S.; Meilhac, O.; Diotel, N.
2023. The journal of comparative neurology, 531 (17), 1828–1845. doi:10.1002/cne.25543

Development and Validation of a New BAG-1L–Specific Antibody to Quantify BAG-1L Protein Expression in Advanced Prostate Cancer
Neeb, A.; Figueiredo, I.; Gurel, B.; Nava Rodrigues, D.; Rekowski, J.; Riisnaes, R.; Ferreira, A.; Miranda, S.; Crespo, M.; Westaby, D.; de Los Dolores Fenor de La Maza, M.; Guo, C.; Carmichael, J.; Grochot, R.; Tunariu, N.; Cato, A. C. B.; Plymate, S. R.; de Bono, J. S.; Sharp, A.
2023. Laboratory Investigation, 103 (11), Article no: 100245. doi:10.1016/j.labinv.2023.100245

Selected contributions from the Workshop “Computational Intelligence”
Mikut, R.; Kroll, A.; Schulte, H.
2023. at - Automatisierungstechnik, 71 (10), 817–819. doi:10.1515/auto-2023-0159

A fully automated touch-response behavior inspection pipeline on zebrafish larvae
Wang, Y.; Pylatiuk, C.; Mikut, R.; Peravali, R.; Reischl, M.
2023. at - Automatisierungstechnik, 71 (10), 845–852. doi:10.1515/auto-2023-0013

Cleavage furrow-directed cortical flows bias PAR polarization pathways to link cell polarity to cell division
Ng, K.; Hirani, N.; Bland, T.; Borrego-Pinto, J.; Wagner, S.; Kreysing, M.; Goehring, N. W.
2023. Current Biology, 33 (20), 4298–4311.e6. doi:10.1016/j.cub.2023.08.076

Establishment of cell lines from individual zebrafish embryos
Geyer, N.; Kaminsky, S.; Confino, S.; Livne, Z. B.-M.; Gothilf, Y.; Foulkes, N. S.; Vallone, D.
2023. Laboratory Animals, 57 (5), 518–528. doi:10.1177/00236772231157162

Amphiphiles Formed from Synthetic DNA-Nanomotifs Mimic the Stepwise Dispersal of Transcriptional Clusters in the Cell Nucleus
Tschurikow, X.; Gadzekpo, A.; Tran, M. P.; Chatterjee, R.; Sobucki, M.; Zaburdaev, V.; Göpfrich, K.; Hilbert, L.
2023. Nano Letters, 23 (17), 7815–7824. doi:10.1021/acs.nanolett.3c01301

Unsupervised GAN epoch selection for biomedical data synthesis
Böhland, M.; Bruch, R.; Löffler, K.; Reischl, M.
2023. Current Directions in Biomedical Engineering, 9 (1), 467–470. doi:10.1515/cdbme-2023-1117

A Lightweight Framework for Semantic Segmentation of Biomedical Images
Rieken Münke, F.; Rettenberger, L.; Popova, A.; Reischl, M.
2023. Current Directions in Biomedical Engineering, 9 (1), 190–193. doi:10.1515/cdbme-2023-1048

Mask R-CNN Outperforms U-Net in Instance Segmentation for Overlapping Cells
Rettenberger, L.; Rieken Münke, F.; Bruch, R.; Reischl, M.
2023. Current Directions in Biomedical Engineering, 9 (1), 335–338. doi:10.1515/cdbme-2023-1084

Systems toxicology of complex wood combustion aerosol reveals gaseous carbonyl compounds as critical constituents
Dilger, M.; Armant, O.; Ramme, L.; Mülhopt, S.; Sapcariu, S. C.; Schlager, C.; Dilger, E.; Reda, A.; Orasche, J.; Schnelle-Kreis, J.; Conlon, T. M.; Yildirim, A. Ö.; Hartwig, A.; Zimmermann, R.; Hiller, K.; Diabaté, S.; Paur, H.-R.; Weiss, C.
2023. Environment International, 179, Art.-Nr.: 108169. doi:10.1016/j.envint.2023.108169

Self-Supervised Learning for Annotation Efficient Biomedical Image Segmentation
Rettenberger, L.; Schilling, M.; Elser, S.; Boehland, M.; Reischl, M.
2023. IEEE Transactions on Biomedical Engineering, 70 (9), 2519–2528. doi:10.1109/TBME.2023.3252889

Key Role of Choline Head Groups in Large Unilamellar Phospholipid Vesicles for the Interaction with and Rupture by Silica Nanoparticles
Leibe, R.; Fritsch-Decker, S.; Gussmann, F.; Wagbo, A. M.; Wadhwani, P.; Diabaté, S.; Wenzel, W.; Ulrich, A. S.; Weiss, C.
2023. Small, 19 (34), Artkl.Nr.: 2207593. doi:10.1002/smll.202207593

sox1a:eGFP transgenic line and single-cell transcriptomics reveal the origin of zebrafish intraspinal serotonergic neurons
Chen, F.; Köhler, M.; Cucun, G.; Takamiya, M.; Kizil, C.; Cosacak, M. I.; Rastegar, S.
2023. iScience, 26 (8), Artkl. Nr.: 107342. doi:10.1016/j.isci.2023.107342

Photobiology: Fish eggs go sunny side up
Foulkes, N. S.
2023. Current Biology, 33 (15), R810–R812. doi:10.1016/j.cub.2023.06.078

CEMIP ( HYBID , KIAA1199 ): structure, function and expression in health and disease
Spataro, S.; Guerra, C.; Cavalli, A.; Sgrignani, J.; Sleeman, J.; Poulain, L.; Boland, A.; Scapozza, L.; Moll, S.; Prunotto, M.
2023. The FEBS Journal, 290 (16), 3946–3962. doi:10.1111/febs.16600

De novo amyloid peptides with subtle sequence variations differ in their self-assembly and nanomechanical properties
Abernathy, H. G.; Saha, J.; Kemp, L. K.; Wadhwani, P.; Clemons, T. D.; Morgan, S. E.; Rangachari, V.
2023. Soft Matter, 19 (27), 5150–5159. doi:10.1039/d3sm00604b

ISO-FLUCS: symmetrization of optofluidic manipulations in quasi-isothermal micro-environments
Minopoli, A.; Wagner, S.; Erben, E.; Liao, W.; Stoev, I. D.; Lauga, E.; Kreysing, M.
2023. eLight, 3, Art.-Nr.: 16. doi:10.1186/s43593-023-00049-z

Fat Grafts Show Higher Hypoxia, Angiogenesis, Adipocyte Proliferation, and Macrophage Infiltration than Flaps in a Pilot Mouse Study
Thomas, B.; Warszawski, J.; Falkner, F.; Bleichert, S.; Haug, V.; Bigdeli, A. K.; Schulte, M.; Hoffmann, S. H. L.; Garvalov, B. K.; Schreiber, C.; Takamiya, M.; Sleeman, J. P.; Schmidt, V. J.; Kneser, U.; Pichler, B. J.; Dimmler, A.; Thiele, W.
2023. Plastic and reconstructive surgery, 152 (1), 96e – 109e. doi:10.1097/PRS.0000000000010146

The Precision Toxicology initiative
Weiss, C.; Dickmeis, T.; Hayot, G.; Peravali, R.; Cramer von Clausbruch, C.; Pace, G.
2023. Toxicology Letters, 383, 33–42. doi:10.1016/j.toxlet.2023.05.004

Length matters: Functional flip of the short TatA transmembrane helix
Stockwald, E. R.; Steger, L. M. E.; Vollmer, S.; Gottselig, C.; Grage, S. L.; Bürck, J.; Afonin, S.; Fröbel, J.; Blümmel, A.-S.; Setzler, J.; Wenzel, W.; Walther, T. H.; Ulrich, A. S.
2023. Biophysical Journal, 122 (11), 2125–2146. doi:10.1016/j.bpj.2022.12.016

Longitudinal evaluation of the subbasal nerve plexus at identical corneal regions by large-area confocal microscopy
Bohn, S.; Stache, N.; Sterenczak, K.; Sperlich, K.; Allgeier, S.; Köhler, B.; Mikut, R.; Reichert, K.-M.; Guthoff, R.; Stachs, O.
2023. Investigative ophthalmology & visual science, 64 (8), Art.-Nr.: 4025

Biphasic reinforcement of nascent adhesions by vinculin
Baumann, H.; Schwingel, M.; Sestu, M.; Burcza, A.; Marg, S.; Ziegler, W.; Taubenberger, A. V. V.; Muller, D. J. J.; Bastmeyer, M.; Franz, C. M. M.
2023. Journal of Molecular Recognition, 36 (6), Art.-Nr.: e3012. doi:10.1002/jmr.3012

Telomeres Fuse During Cardiomyocyte Maturation
Aix, E.; Gallinat, A.; Yago-Díez, C.; Lucas, J.; Gómez, M. J.; Benguría, A.; Freitag, P.; Cortez-Toledo, E.; Fernández de Manuel, L.; García-Cuasimodo, L.; Sánchez-Iranzo, H.; Montoya, M. C.; Dopazo, A.; Sánchez-Cabo, F.; Mercader, N.; López, J. E.; Fleischmann, B. K.; Hesse, M.; Flores, I.
2023. Circulation, 147 (21), 1634–1636. doi:10.1161/CIRCULATIONAHA.122.062229

Taxane-Induced Neuropathy and Its Ocular Effects—A Longitudinal Follow-up Study in Breast Cancer Patients
Stache, N.; Bohn, S.; Sperlich, K.; George, C.; Winter, K.; Schaub, F.; Do, H.-V.; Röhlig, M.; Reichert, K.-M.; Allgeier, S.; Stachs, O.; Stachs, A.; Sterenczak, K. A.
2023. Cancers, 15 (9), Art.-Nr.: 2444. doi:10.3390/cancers15092444

High-fat diet feeding triggers a regenerative response in the adult zebrafish brain
Azbazdar, Y.; Poyraz, Y. K.; Ozalp, O.; Nazli, D.; Ipekgil, D.; Cucun, G.; Ozhan, G.
2023. Molecular Neurobiology, 2486–2506. doi:10.1007/s12035-023-03210-4

Therapy resistance and metastasis
Sleeman, J. P.
2023. Clinical & Experimental Metastasis, 40 (2), 123–124. doi:10.1007/s10585-023-10205-x

Simulation uncertainty determination of single flank rolling tests using monte carlo simulation and skin model shapes for zero defect manufacturing of micro gears
Gauder, D.; Bott, A.; Gölz, J.; Lanza, G.
2023. Computers in Industry, 146, Art.-Nr.: 103854. doi:10.1016/j.compind.2023.103854

Controlling non-stationarity and periodicities in time series generation using conditional invertible neural networks
Heidrich, B.; Turowski, M.; Phipps, K.; Schmieder, K.; Süß, W.; Mikut, R.; Hagenmeyer, V.
2023. Applied Intelligence, 53 (8), 8826–8843. doi:10.1007/s10489-022-03742-7

A DNA Segregation Module for Synthetic Cells
Tran, M. P.; Chatterjee, R.; Dreher, Y.; Fichtler, J.; Jahnke, K.; Hilbert, L.; Zaburdaev, V.; Göpfrich, K.
2023. Small, 19 (13), Art.-Nr.: 2202711. doi:10.1002/smll.202202711

Theoretical model of confined thermoviscous flows for artificial cytoplasmic streaming
Liao, W.; Erben, E.; Kreysing, M.; Lauga, E.
2023. Physical Review Fluids, 8 (3), Art.-Nr.: 034202. doi:10.1103/PhysRevFluids.8.034202

Quantitative and qualitative assessment of cytotoxicity by automated fluorescence microscopy in human hepatocytes
Cramer von Clausbruch, C.; Weiss, C.; Dickmeis, T.; Peravali, R.; Strähle, U.; Colbourne, J.; Hayot, G.; Scholz, S.; Lopez, R. M.
2023. Naunyn-Schmiedeberg’s Archives of Pharmacology, 396 (S1), S61–62. doi:10.1007/s00210-023-02397-6

Phenotypic anchoring for OMICS-guided assessment of liver toxicity in zebrafish
Dickmeis, T.; Hayot, G.; Clausbruch, C. C. von; Martinez Lopez, R.; Scholz, S.; Colbourne, J.; Strähle, U.; Weiss, C.; Peravali, R.
2023. Naunyn-Schmiedeberg’s Archives of Pharmacology, 396 (S1), S61

Nickel oxide nanoparticles induce developmental neurotoxicity in zebrafish by triggering both apoptosis and ferroptosis
Wang, Z.; Bi, Y.; Li, K.; Song, Z.; Pan, C.; Zhang, S.; Lan, X.; Foulkes, N. S.; Zhao, H.
2023. Environmental Science: Nano, 10 (2), 640–655. doi:10.1039/d2en00757f

Temperature‐Dependent Re‐alignment of the Short Multifunctional Peptide BP100 in Membranes Revealed by Solid‐State NMR Spectroscopy and Molecular Dynamics Simulations
Strandberg, E.; Wadhwani, P.; Bürck, J.; Anders, P.; Mink, C.; van den Berg, J.; Ciriello, R. A. M.; Melo, M. N.; Castanho, M. A. R. B.; Bardají, E.; Ulmschneider, J. P.; Ulrich, A. S.
2023. ChemBioChem, 24 (4). doi:10.1002/cbic.202200602

Latarcins: Antimicrobial and cell-penetrating peptides from spider venom
Wadhwani, P.; Sekaran, S.; Strandberg, E.; Chugh, A.; Ulrich, A. S.
2023. Biophysical Journal, 122 (3 Supplement 1), 154a–155a. doi:10.1016/j.bpj.2022.11.982

Mechanism of action of beta-stranded antimicrobial (KL) $_{n}$ model peptides
Strandberg, E.; Schweigardt, F.; Wadhwani, P.; Ulrich, A. S.
2023. Biophysical Journal, 122 (3 Supplement 1), Art.-Nr.: 369a. doi:10.1016/j.bpj.2022.11.2033

Ferroptosis contributes to nickel-induced developmental neurotoxicity in zebrafish
Wang, Z.; Li, K.; Xu, Y.; Song, Z.; Lan, X.; Pan, C.; Zhang, S.; Foulkes, N. S.; Zhao, H.
2023. Science of The Total Environment, 858, Article no: 160078. doi:10.1016/j.scitotenv.2022.160078

A Purely Visual Re-ID Approach for Bumblebees (Bombus terrestris)
Borlinghaus, P.; Tausch, F.; Rettenberger, L.
2023. Smart Agricultural Technology, 3, Art.-Nr.: 100135. doi:10.1016/j.atech.2022.100135

Distribution of microglia/immune cells in the brain of adult zebrafish in homeostatic and regenerative conditions: Focus on oxidative stress during brain repair
Narra, S. S.; Rondeau, P.; Fernezelian, D.; Gence, L.; Ghaddar, B.; Bourdon, E.; Lefebvre d’Hellencourt, C.; Rastegar, S.; Diotel, N.
2023. Journal of Comparative Neurology, 531 (2), 238–255. doi:10.1002/cne.25421

Comparing the Toxicological Responses of Pulmonary Air–Liquid Interface Models upon Exposure to Differentially Treated Carbon Fibers
Friesen, A.; Fritsch-Decker, S.; Mülhopt, S.; Quarz, C.; Mahl, J.; Baumann, W.; Hauser, M.; Wexler, M.; Schlager, C.; Gutmann, B.; Krebs, T.; Goßmann, A.-K.; Weis, F.; Hufnagel, M.; Stapf, D.; Hartwig, A.; Weiss, C.
2023. International Journal of Molecular Sciences, 24 (3), Art.-Nr.: 1927. doi:10.3390/ijms24031927

Reversible Host–Guest Crosslinks in Supramolecular Hydrogels for On‐Demand Mechanical Stimulation of Human Mesenchymal Stem Cells
Linke, P.; Munding, N.; Kimmle, E.; Kaufmann, S.; Hayashi, K.; Nakahata, M.; Takashima, Y.; Sano, M.; Bastmeyer, M.; Holstein, T.; Dietrich, S.; Müller-Tidow, C.; Harada, A.; Ho, A. D.; Tanaka, M.
2023. Advanced Healthcare Materials, 2302607. doi:10.1002/adhm.202302607

The crosstalk between glomerular endothelial cells and podocytes controls their responses to metabolic stimuli in diabetic nephropathy
Albrecht, M.; Sticht, C.; Wagner, T.; Hettler, S. A.; De La Torre, C.; Qiu, J.; Gretz, N.; Albrecht, T.; Yard, B.; Sleeman, J. P.; Garvalov, B. K.
2023. Scientific Reports, 13, Article no: 17985. doi:10.1038/s41598-023-45139-7

Ketogenic diet does not promote triple-negative and luminal mammary tumor growth and metastasis in experimental mice
Grube, M.; Dimmler, A.; Schmaus, A.; Saup, R.; Wagner, T.; Garvalov, B. K.; Sleeman, J. P.; Thiele, W.
2023. Clinical and Experimental Metastasis. doi:10.1007/s10585-023-10249-z

The role of host response to chemotherapy: resistance, metastasis and clinical implications
Deo, A.; Sleeman, J. P.; Shaked, Y.
2023. Clinical and Experimental Metastasis. doi:10.1007/s10585-023-10243-5

Label-Free Imaging of Solid-Phase Peptide Synthesis Products and Their Modifications Tethered in Microspots Using Time-of-Flight Secondary Ion Mass Spectrometry
Schmidt, D.; Maier, J.; Bernauer, H.; Nesterov-Mueller, A.
2023. International Journal of Molecular Sciences, 24 (21), Art.-Nr.: 15945. doi:10.3390/ijms242115945

Negative phototaxis in the photosymbiotic sea anemone Aiptasia as a potential strategy to protect symbionts from photodamage
Kishimoto, M.; Gornik, S. G.; Foulkes, N. S.; Guse, A.
2023. Scientific Reports, 13 (1), Art.-Nr.: 17857. doi:10.1038/s41598-023-44583-9

Improving generative adversarial networks for patch-based unpaired image-to-image translation
Böhland, M.; Bruch, R.; Bäuerle, S.; Rettenberger, L.; Reischl, M.
2023. IEEE Access, 11, 127895–127906. doi:10.1109/ACCESS.2023.3331819

In Vitro and in Vivo Evaluation of Photocontrolled Biologically Active Compounds - Potential Drug Candidates for Cancer Photopharmacology
Horbatok, K.; Makhnii, T.; Kosach, V.; Danko, V.; Kovalenko, A.; Fatiushchenkov, S.; Borysko, P.; Pishel, I.; Babii, O.; Ulrich, A. S.; Schober, T.; Afonin, S.; Komarov, I. V.
2023. Journal of Visualized Experiments, 2023 (199), e64902. doi:10.3791/64902

3072 – UNDERSTANDING THE RELATIONSHIP BETWEEN STEM CELL HETEROGENEITY AND RECONSTITUTION KINETICS IN HEMATOPOIETIC SYSTEMS: INSIGHTS FROM IN-DEPTH SINGLE-CELL ANALYSIS OF CLONALLY-DERIVED SYSTEMS
Grünschläger, F.; Al-Sabah, J.; Correa, E. R.; Kumpost, V.; Malmierca, P. H.; Mathioudaki, A.; Anstee, N.; Gräsel, J.; Vonficht, D.; Zaugg, J.; Mikut, R.; Milsom, M.; Trumpp, A.; Hübschmann, D.; Haas, S.
2023. Experimental Hematology, 124, S86. doi:10.1016/j.exphem.2023.06.179

Synchronization of oscillatory growth prepares fungal hyphae for fusion
Wernet, V.; Kriegler, M.; Kumpost, V.; Mikut, R.; Hilbert, L.; Fischer, R.
2023. eLife, 12, Art.-Nr.: e83310. doi:10.7554/eLife.83310

Insulin signaling promotes neurogenesis in the brain of adult zebrafish
Gence, L.; Fernezelian, D.; Meilhac, O.; Rastegar, S.; Bascands, J.-L.; Diotel, N.
2023. Journal of Comparative Neurology, 531 (17), 1812–1827. doi:10.1002/cne.25542

Can BioSAXS detect ultrastructural changes of antifungal compounds in Candida albicans?–an exploratory study
Hilpert, K.; Rumancev, C.; Gani, J.; Collis, D. W. P.; Lopez-Perez, P. M.; Garamus, V. M.; Mikut, R.; Rosenhahn, A.
2023. Frontiers in Pharmacology, 14, Art.-Nr.: 1141785. doi:10.3389/fphar.2023.1141785

Increased Circulating Osteopontin Levels Promote Primary Tumour Growth, but Do Not Induce Metastasis in Melanoma
Saup, R.; Nair, N.; Shen, J.; Schmaus, A.; Thiele, W.; Garvalov, B. K.; Sleeman, J. P.
2023. Biomedicines, 11 (4), Art.-Nr.: 1038. doi:10.3390/biomedicines11041038

Detection of Cellular Senescence Reveals the Existence of Senescent Tumor Cells within Invasive Breast Carcinomas and Related Metastases
Cotarelo, C. L.; Schad, A.; Schmidt, M.; Hönig, A.; Sleeman, J. P.; Thaler, S.
2023. Cancers, 15 (6), Art.-Nr.: 1860. doi:10.3390/cancers15061860

Charge controlled interactions between DNA-modified silica nanoparticles and fluorosurfactants in microfluidic water-in-oil droplets
Sheshachala, S.; Huber, B.; Schuetzke, J.; Mikut, R.; Scharnweber, T.; Domínguez, C. M.; Mutlu, H.; Niemeyer, C. M.
2023. Nanoscale Advances, 5 (15), 3914–3923. doi:10.1039/D3NA00124E

A Yap-dependent mechanoregulatory program sustains cell migration for embryo axis assembly
Sousa-Ortega, A.; Vázquez-Marín, J.; Sanabria-Reinoso, E.; Corbacho, J.; Polvillo, R.; Campoy-López, A.; Buono, L.; Loosli, F.; Almuedo-Castillo, M.; Martínez-Morales, J. R.
2023. Nature Communications, 14, Art.-Nr.: 2804. doi:10.1038/s41467-023-38482-w

The Cell Tracking Challenge: 10 years of objective benchmarking
Maška, M.; Ulman, V.; Delgado-Rodriguez, P.; Gómez-de-Mariscal, E.; Nečasová, T.; Guerrero Peña, F. A.; Ren, T. I.; Meyerowitz, E. M.; Scherr, T.; Löffler, K.; Mikut, R.; Guo, T.; Wang, Y.; Allebach, J. P.; Bao, R.; Al-Shakarji, N. M.; Rahmon, G.; Toubal, I. E.; Palaniappan, K.; Lux, F.; Matula, P.; Sugawara, K.; Magnusson, K. E. G.; Aho, L.; Cohen, A. R.; Arbelle, A.; Ben-Haim, T.; Raviv, T. R.; Isensee, F.; Jäger, P. F.; Maier-Hein, K. H.; Zhu, Y.; Ederra, C.; Urbiola, A.; Meijering, E.; Cunha, A.; Muñoz-Barrutia, A.; Kozubek, M.; Ortiz-de-Solórzano, C.
2023. Nature Methods, 20, 1010–1020. doi:10.1038/s41592-023-01879-y

Physiological-dependent alterations on transcriptomic and proteomic patterns of the single and combined temperature and salinity-exposed hybrid grouper, Epinephelus fuscoguttatus ♀ × Epinephelus lanceolatus ♂
Bo, J.; Zheng, R.; Jiang, Y.; Chen, J.; Fang, C.; Bailey, C.; Zhang, Y.; Lee, J.-S.; Segner, H.
2023. Aquaculture, 575, Art.-Nr.: 739746. doi:10.1016/j.aquaculture.2023.739746

Categorization and Evaluation Methods for Control Strategies of Bilateral Tasks in Arm Prosthetics
Hetto, T.; Schulz, S.; Reischl, M.
2023. IEEE Access, 11, 52501–52508. doi:10.1109/ACCESS.2023.3278836

Exploring Functional Photonic Devices made from a Chiral Metal–Organic Framework Material by a Multiscale Computational Method
Zerulla, B.; Li, C.; Beutel, D.; Oßwald, S.; Holzer, C.; Bürck, J.; Bräse, S.; Wöll, C.; Fernandez-Corbaton, I.; Heinke, L.; Rockstuhl, C.; Krstić, M.
2023. Advanced Functional Materials. doi:10.1002/adfm.202301093

Structural Dissection of Epsin‐1 N‐Terminal Helical Peptide: The Role of Hydrophobic Residues in Modulating Membrane Curvature
Nishimura, M.; Kawaguchi, Y.; Kuroki, K.; Nakagawa, Y.; Masuda, T.; Sakai, T.; Kawano, K.; Hirose, H.; Imanishi, M.; Imanishi, M.; Takatani-Nakase, T.; Afonin, S.; Ulrich, A. S.; Futaki, S.
2023. Chemistry – A European Journal, 29 (29), e202300129. doi:10.1002/chem.202300129

Acellular Human Placenta Small-Diameter Vessels as a Favorable Source of Super-Microsurgical Vascular Replacements: A Proof of Concept
Falkner, F.; Mayer, S. A.; Thomas, B.; Zimmermann, S. O.; Walter, S.; Heimel, P.; Thiele, W.; Sleeman, J. P.; Bigdeli, A. K.; Kiss, H.; Podesser, B. K.; Kneser, U.; Bergmeister, H.; Schneider, K. H.
2023. Bioengineering, 10 (3), Artkl.Nr.: 337. doi:10.3390/bioengineering10030337

Screening for Primordial RNA–Peptide Interactions Using High-Density Peptide Arrays
Jenne, F.; Berezkin, I.; Tempel, F.; Schmidt, D.; Popov, R.; Nesterov-Mueller, A.
2023. Life, 13 (3), Art.-Nr.: 796. doi:10.3390/life13030796

Membrane remodelling triggers maturation of excitation–contraction coupling in 3D-shaped human-induced pluripotent stem cell-derived cardiomyocytes
Kermani, F.; Mosqueira, M.; Peters, K.; Lemma, E. D.; Rapti, K.; Grimm, D.; Bastmeyer, M.; Laugsch, M.; Hecker, M.; Ullrich, N. D.
2023. Basic Research in Cardiology, 118 (1), Art.-Nr.: 13. doi:10.1007/s00395-023-00984-5

Smuggling on the Nanoscale—Fusogenic Liposomes Enable Efficient RNA-Transfer with Negligible Immune Response In Vitro and In Vivo
Hoffmann, M.; Gerlach, S.; Takamiya, M.; Tarazi, S.; Hersch, N.; Csiszár, A.; Springer, R.; Dreissen, G.; Scharr, H.; Rastegar, S.; Beil, T.; Strähle, U.; Merkel, R.; Hoffmann, B.
2023. Pharmaceutics, 15 (4), Art.-Nr.: 1210. doi:10.3390/pharmaceutics15041210

Synthesis of large scale 3D microscopic images of 3D cell cultures for training and benchmarking
Bruch, R.; Keller, F.; Böhland, M.; Vitacolonna, M.; Klinger, L.; Rudolf, R.; Reischl, M.
2023. PLOS ONE, 18 (3), Article no: e0283828. doi:10.1371/journal.pone.0283828

Automated high-throughput image processing as part of the screening platform for personalized oncology
Schilling, M. P.; El Khaled El Faraj, R.; Urrutia Gómez, J. E.; Sonnentag, S. J.; Wang, F.; Nestler, B.; Orian-Rousseau, V.; Popova, A. A.; Levkin, P. A.; Reischl, M.
2023. Scientific Reports, 13, Article no: 5107. doi:10.1038/s41598-023-32144-z

Temperature-based quality analysis in ultrasonic welding of copper sheets with microstructural joint evaluation and machine learning methods
Schwarz, E. B.; Bleier, F.; Guenter, F.; Mikut, R.; Bergmann, J. P.
2023. Welding in the World, 67, 1437–1448. doi:10.1007/s40194-023-01463-0

Twisting of Porphyrin by Assembly in a Metal‐Organic Framework yielding Chiral Photoconducting Films for Circularly‐Polarized‐Light Detection
Li, C.; Schopmans, H.; Langer, L.; Marschner, S.; Chandresh, A.; Bürck, J.; Tsuchiya, Y.; Chihaya, A.; Wenzel, W.; Bräse, S.; Kozlowska, M.; Heinke, L.
2023. Angewandte Chemie - International Edition, 62 (10), Art.-Nr.: e202217377. doi:10.1002/anie.202217377

Noise facilitates entrainment of a population of uncoupled limit cycle oscillators
Kumpost, V.; Hilbert, L.; Mikut, R.
2023. Journal of The Royal Society Interface, 20 (198), Art.-Nr.: 20220781. doi:10.1098/rsif.2022.0781

Zebrafish: A Model Deciphering the Impact of Flavonoids on Neurodegenerative Disorders
Mhalhel, K.; Sicari, M.; Chen, J.; Levanti, M.; Diotel, N.; Pansera, L.; Rastegar, S.; Germanà, A.; Montalbano, G.
2023. Cells, 12 (2), Art.-Nr.: 252. doi:10.3390/cells12020252

2022

Automated Zebrafish Phenotype Pattern Recognition: 6 Years Ago, and Now
Schutera, M.; Rettenberger, L.; Reischl, M.
2022. Zebrafish, 19 (6), 213–217. doi:10.1089/zeb.2022.0027

Orthogonal protein decoration of DNA nanostructures based on SpyCatcher–SpyTag interaction
Kröll, S.; Schneider, L.; Wadhwani, P.; Rabe, K. S.; Niemeyer, C. M.
2022. Chemical Communications, 58 (97), 13471–13474. doi:10.1039/D2CC05335G

Mosaic vs. Single Image Analysis with Confocal Microscopy of the Corneal Nerve Plexus for Diagnosis of Early Diabetic Peripheral Neuropathy
Matuszewska-Iwanicka, A.; Stratmann, B.; Stachs, O.; Allgeier, S.; Bartschat, A.; Winter, K.; Guthoff, R.; Tschoepe, D.; Hettlich, H.-J.
2022. Ophthalmology and Therapy, 11 (6), 2211–2223. doi:10.1007/s40123-022-00574-z

Comparison of anxiety-like and social behaviour in medaka and zebrafish
Lucon-Xiccato, T.; Loosli, F.; Conti, F.; Foulkes, N. S.; Bertolucci, C.
2022. Scientific Reports, 12 (1), Art.Nr. 10926. doi:10.1038/s41598-022-14978-1

In silico identification of two peptides with antibacterial activity against multidrug-resistant Staphylococcus aureus
Oyama, L. B.; Olleik, H.; Teixeira, A. C. N.; Guidini, M. M.; Pickup, J. A.; Hui, B. Y. P.; Vidal, N.; Cookson, A. R.; Vallin, H.; Wilkinson, T.; Bazzolli, D. M. S.; Richards, J.; Wootton, M.; Mikut, R.; Hilpert, K.; Maresca, M.; Perrier, J.; Hess, M.; Mantovani, H. C.; Fernandez-Fuentes, N.; Creevey, C. J.; Huws, S. A.
2022. npj Biofilms and Microbiomes, 8 (1), Artikel-Nr.: 58. doi:10.1038/s41522-022-00320-0

Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma
Prummel, K. D.; Crowell, H. L.; Nieuwenhuize, S.; Brombacher, E. C.; Daetwyler, S.; Soneson, C.; Kresoja-Rakic, J.; Kocere, A.; Ronner, M.; Ernst, A.; Labbaf, Z.; Clouthier, D. E.; Firulli, A. B.; Sánchez-Iranzo, H.; Naganathan, S. R.; O’Rourke, R.; Raz, E.; Mercader, N.; Burger, A.; Felley-Bosco, E.; Huisken, J.; Robinson, M. D.; Mosimann, C.
2022. Nature Communications, 13 (1), 1677. doi:10.1038/s41467-022-29311-7

Loss of the Bardet-Biedl protein Bbs1 alters photoreceptor outer segment protein and lipid composition
Masek, M.; Etard, C.; Hofmann, C.; Hülsmeier, A. J.; Zang, J.; Takamiya, M.; Gesemann, M.; Neuhauss, S. C. F.; Hornemann, T.; Strähle, U.; Bachmann-Gagescu, R.
2022. Nature Communications, 13 (1), 1282. doi:10.1038/s41467-022-28982-6

Genomic variations and epigenomic landscape of the Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel
Leger, A.; Brettell, I.; Monahan, J.; Barton, C.; Wolf, N.; Kusminski, N.; Herder, C.; Aadepu, N.; Becker, C.; Gierten, J.; Hammouda, O. T.; Hasel, E.; Lischik, C.; Lust, K.; Sokolova, N.; Suzuki, R.; Tavhelidse, T.; Thumberger, T.; Tsingos, E.; Watson, P.; Welz, B.; Naruse, K.; Loosli, F.; Wittbrodt, J.; Birney, E.; Fitzgerald, T.
2022. Genome biology, 23 (1), Article no: 58. doi:10.1186/s13059-022-02602-4

The Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel
Fitzgerald, T.; Brettell, I.; Leger, A.; Wolf, N.; Kusminski, N.; Monahan, J.; Barton, C.; Herder, C.; Aadepu, N.; Gierten, J.; Becker, C.; Hammouda, O. T.; Hasel, E.; Lischik, C.; Lust, K.; Sokolova, N.; Suzuki, R.; Tsingos, E.; Tavhelidse, T.; Thumberger, T.; Watson, P.; Welz, B.; Khouja, N.; Naruse, K.; Birney, E.; Wittbrodt, J.; Loosli, F.
2022. Genome biology, 23 (1), Article no: 59. doi:10.1186/s13059-022-02623-z

Characterization of the pace-and-drive capacity of the human sinoatrial node: A 3D in silico study
Amsaleg, A.; Sánchez, J.; Mikut, R.; Loewe, A.
2022. Biophysical Journal, 121 (22), 4247–4259. doi:10.1016/j.bpj.2022.10.020

Highly Fluorinated Peptide Probes with Enhanced In Vivo Stability for $^{19}$ F‐MRI
Meng, B.; Grage, S. L.; Babii, O.; Takamiya, M.; MacKinnon, N.; Schober, T.; Hutskalov, I.; Nassar, O.; Afonin, S.; Koniev, S.; Komarov, I. V.; Korvink, J. G.; Strähle, U.; Ulrich, A. S.
2022. Small, 18 (41), Art.Nr. 2107308. doi:10.1002/smll.202107308

Genetically encodable fluorescent protein markers in advanced optical imaging
Nienhaus, K.; Nienhaus, G. U.
2022. Methods and Applications in Fluorescence, 10 (4), Art.-Nr.: 042002. doi:10.1088/2050-6120/ac7d3f

Droplet Microarray Based Screening Identifies Proteins for Maintaining Pluripotency of hiPSCs
Liu, Y.; Bertels, S.; Reischl, M.; Peravali, R.; Bastmeyer, M.; Popova, A. A.; Levkin, P. A.
2022. Advanced Healthcare Materials, 11 (18), Art.-Nr.: 2200718. doi:10.1002/adhm.202200718

Abstractband DOG 2022; Utilizing static corneal landmarks to assess dynamic corneal nerve changes by in vivo large-area confocal microscopy
Bohn, S.; Stache, N.; Sterenczak, K. A.; Sperlich, K.; Allgeier, S.; Köhler, B.; Mikut, R.; Bartschat, A.; Reichert, K.-M.; Guthoff, R., F.; Stachs, O.
2022. Die Ophthalmologie, 119 (S3), 157–344. doi:10.1007/s00347-022-01723-2

Medaka as a model for seasonal plasticity: Photoperiod-mediated changes in behaviour, cognition, and hormones
Lucon-Xiccato, T.; Montalbano, G.; Frigato, E.; Loosli, F.; Foulkes, N. S.; Bertolucci, C.
2022. Hormones and Behavior, 145, Article no: 105244. doi:10.1016/j.yhbeh.2022.105244

Structural analysis of the peptides temporin-Ra and temporin-Rb and interactions with model membranes
Lopes, J. L. S.; Araujo, C. C. F.; Neves, R. C.; Bürck, J.; Couto, S. G.
2022. European Biophysics Journal, 51 (6), 493–502. doi:10.1007/s00249-022-01615-y

Towards in vivo photomediated delivery of anticancer peptides: Insights from pharmacokinetic and -dynamic data
Komarov, I. V.; Tolstanova, G.; Kuznietsova, H.; Dziubenko, N.; Yanchuk, P. I.; Shtanova, L. Y.; Veselsky, S. P.; Garmanchuk, L. V.; Khranovska, N.; Gorbach, O.; Dovbynchuk, T.; Borysko, P.; Babii, O.; Schober, T.; Ulrich, A. S.; Afonin, S.
2022. Journal of Photochemistry and Photobiology B: Biology, 233, Art.-Nr.: 112479. doi:10.1016/j.jphotobiol.2022.112479

Deep-learning microscopy image reconstruction with quality control reveals second-scale rearrangements in RNA polymerase II clusters
Hajiabadi, H.; Mamontova, I.; Prizak, R.; Pancholi, A.; Koziolek, A.; Hilbert, L.
2022. (K. E. Nelson, Ed.) PNAS Nexus, 1 (3), 1–12. doi:10.1093/pnasnexus/pgac065

Gene Expression Profiling of Mono- and Co-Culture Models of the Respiratory Tract Exposed to Crystalline Quartz under Submerged and Air-Liquid Interface Conditions
Friesen, A.; Fritsch-Decker, S.; Hufnagel, M.; Mülhopt, S.; Stapf, D.; Weiss, C.; Hartwig, A.
2022. International Journal of Molecular Sciences, 23 (14), 7773. doi:10.3390/ijms23147773

Homodimerization Counteracts the Detrimental Effect of Nitrogenous Heme Ligands on the Enzymatic Activity of Acanthamoeba castellanii CYP51
Nienhaus, K.; Sharma, V.; Nienhaus, G. U.; Podust, L. M.
2022. Biochemistry, 61 (13), 1363–1377. doi:10.1021/acs.biochem.2c00198

Protein adsorption onto nanomaterials engineered for theranostic applications
Nienhaus, K.; Xue, Y.; Shang, L.; Nienhaus, G. U.
2022. Nanotechnology, 33 (26), Art.-Nr.: 262001. doi:10.1088/1361-6528/ac5e6c

Comparing α-Quartz-Induced Cytotoxicity and Interleukin-8 Release in Pulmonary Mono- and Co-Cultures Exposed under Submerged and Air-Liquid Interface Conditions
Friesen, A.; Fritsch-Decker, S.; Hufnagel, M.; Mülhopt, S.; Stapf, D.; Hartwig, A.; Weiss, C.
2022. International Journal of Molecular Sciences, 23 (12), 6412. doi:10.3390/ijms23126412

A chemical probe for BAG1 targets androgen receptor-positive prostate cancer through oxidative stress signaling pathway
Kuznik, N. C.; Solozobova, V.; Lee, I. I.; Jung, N.; Yang, L.; Nienhaus, K.; Ntim, E. A.; Rottenberg, J. T.; Muhle-Goll, C.; Kumar, A. R.; Peravali, R.; Gräßle, S.; Gourain, V.; Deville, C.; Cato, L.; Neeb, A.; Dilger, M.; Cramer von Clausbruch, C. A.; Weiss, C.; Kieffer, B.; Nienhaus, G. U.; Brown, M.; Bräse, S.; Cato, A. C. B.
2022. iScience, 25 (5), Art.Nr. 104175. doi:10.1016/j.isci.2022.104175

Sulfated hyaluronic acid inhibits the hyaluronidase CEMIP and regulates the HA metabolism, proliferation and differentiation of fibroblasts
Schmaus, A.; Rothley, M.; Schreiber, C.; Möller, S.; Roßwag, S.; Franz, S.; Garvalov, B. K.; Thiele, W.; Spataro, S.; Herskind, C.; Prunotto, M.; Anderegg, U.; Schnabelrauch, M.; Sleeman, J.
2022. Matrix Biology, 109, 173–191. doi:10.1016/j.matbio.2022.04.001

Material matters: predicting the core hardness variance in industrialized case hardening of 18CrNi8 [Vorhersage der Kernhärtenvarianz von industriell einsatzgehärtetem 18CrNi8]
Lingelbach, Y.; Waldenmaier, T.; Hagymasi, L.; Mikut, R.; Schulze, V.
2022. Materialwissenschaft und Werkstofftechnik, 53 (5), 576–589. doi:10.1002/mawe.202100249

Improving process monitoring of ultrasonic metal welding using classical machine learning methods and process-informed time series evaluation
Schwarz, E. B.; Bleier, F.; Guenter, F.; Mikut, R.; Bergmann, J. P.
2022. Journal of Manufacturing Processes, 77, 54–62. doi:10.1016/j.jmapro.2022.02.057

DiversityScanner: Robotic handling of small invertebrates with machine learning methods
Wührl, L.; Pylatiuk, C.; Giersch, M.; Lapp, F.; Rintelen, T.; Balke, M.; Schmidt, S.; Cerretti, P.; Meier, R.
2022. Molecular ecology resources, 22 (4), 1626–1638. doi:10.1111/1755-0998.13567

Phosphorylated paxillin and phosphorylated FAK constitute subregions within focal adhesions
Bachmann, M.; Skripka, A.; Weißenbruch, K.; Wehrle-Haller, B.; Bastmeyer, M.
2022. Journal of Cell Science, 135 (7), Art.-Nr.: jcs258764. doi:10.1242/jcs.258764

Nonmuscle myosin IIA dynamically guides regulatory light chain phosphorylation and assembly of nonmuscle myosin IIB
Weißenbruch, K.; Fladung, M.; Grewe, J.; Baulesch, L.; Schwarz, U. S.; Bastmeyer, M.
2022. European Journal of Cell Biology, 101 (2), Art.-Nr.: 151213. doi:10.1016/j.ejcb.2022.151213

High-Throughput Data Acquisition Platform for Multi-Larvae Touch-Response Behavior Screening of Zebrafish
Wang, Y.; Kanagaraj, N. K.; Pylatiuk, C.; Mikut, R.; Peravali, R.; Reischl, M.
2022. IEEE Robotics and automation letters, 7 (2), 858–865. doi:10.1109/LRA.2021.3134281

Single molecule localization-based analysis of clathrin-coated pit and caveolar dynamics
Ma, R.; Štefl, M.; Nienhaus, G. U.
2022. Nanoscale Horizons, 7 (4), 385–395. doi:10.1039/D2NH00008C

Anti-Inflammatory Characteristics of Local Anesthetics: Inhibition of TNF-α Secretion of Lipopolysaccharide-Stimulated Leucocytes in Human Blood Samples
Weinschenk, S.; Weiss, C.; Benrath, J.; Baehr, V. von; Strowitzki, T.; Feißt, M.
2022. International Journal of Molecular Sciences, 23 (6), Article no: 3283. doi:10.3390/ijms23063283

Surface chemistry of fluoroalkylated nanoporous activated carbons: XPS and $^{19}$ F NMR study
Diyuk, V. E.; Zaderko, A. N.; Grishchenko, L. M.; Afonin, S.; Mariychuk, R.; Boldyrieva, O. Y.; Skryshevsky, V. A.; Kaňuchová, M.; Lisnyak, V. V.
2022. Applied Nanoscience (Switzerland), 12 (3), 637–650. doi:10.1007/s13204-021-01717-7

Two-Photon 3D Laser Printing Inside Synthetic Cells
Abele, T.; Messer, T.; Jahnke, K.; Hippler, M.; Bastmeyer, M.; Wegener, M.; Göpfrich, K.
2022. Advanced Materials, 34 (6), Art. Nr.: 2106709. doi:10.1002/adma.202106709

Real-time large-area imaging of the corneal subbasal nerve plexus
Allgeier, S.; Bartschat, A.; Bohn, S.; Guthoff, R. F.; Hagenmeyer, V.; Kornelius, L.; Mikut, R.; Reichert, K.-M.; Sperlich, K.; Stache, N.; Stachs, O.; Köhler, B.
2022. Scientific reports, 12, Article no: 2481. doi:10.1038/s41598-022-05983-5

Genetic Algorithm for the Optimal LiDAR Sensor Configuration on a Vehicle
Berens, F.; Elser, S.; Reischl, M.
2022. IEEE sensors journal, 22 (3), 2735–2743. doi:10.1109/JSEN.2021.3136362

A Homozygous Missense Variant in PPP1R1B/DARPP-32 Is Associated With Generalized Complex Dystonia
Khan, A.; Molitor, A.; Mayeur, S.; Zhang, G.; Rinaldi, B.; Lannes, B.; Lhermitte, B.; Umair, M.; Arold, S. T.; Friant, S.; Rastegar, S.; Anheim, M.; Bahram, S.; Carapito, R.
2022. Movement disorders, 37 (2), 365–374. doi:10.1002/mds.28861

Surface functionalisation-dependent adverse effects of metal nanoparticles and nanoplastics in zebrafish embryos
Hansjosten, I.; Takamiya, M.; Rapp, J.; Reiner, L.; Fritsch-Decker, S.; Mattern, D.; Andraschko, S.; Anders, C.; Pace, G.; Dickmeis, T.; Peravali, R.; Rastegar, S.; Strähle, U.; Hsiao, I.-L.; Gilliland, D.; Ojea-Jimenez, I.; Ambrose, S. V. Y.; Belinga-Desaunay-Nault, M.-F. A.; Khan, A. O.; Lynch, I.; Valsami-Jones, E.; Diabaté, S.; Weiss, C.
2022. Environmental science / Nano, 91 (1), 375–392. doi:10.1039/d1en00299f

Discreteness of cell–surface contacts affects spatio-temporal dynamics, adhesion, and proliferation of mouse embryonic stem cells
Kimmle, E.; Hajian Foroushani, Z.; Keppler, S.; Thoma, J.; Hayashi, K.; Yamamoto, A.; Bastmeyer, M.; Tanaka, M.
2022. Frontiers in Physics, 10, Art.-Nr.: 1052106. doi:10.3389/fphy.2022.1052106

microbeSEG: A deep learning software tool with OMERO data management for efficient and accurate cell segmentation
Scherr, T.; Seiffarth, J.; Wollenhaupt, B.; Neumann, O.; Schilling, M. P.; Kohlheyer, D.; Scharr, H.; Nöh, K.; Mikut, R.
2022. (A. Imran, Ed.) PLOS ONE, 17 (11), Art.-Nr.: e0277601. doi:10.1371/journal.pone.0277601

CEMIP, a Promising Biomarker That Promotes the Progression and Metastasis of Colorectal and Other Types of Cancer
Domanegg, K.; Sleeman, J. P.; Schmaus, A.
2022. Cancers, 14 (20), Art.Nr. 5093. doi:10.3390/cancers14205093

Utilizing static corneal landmarks to assess dynamic corneal nerve changes by in vivo large-area confocal microscopy
Bohn, S.; Stache, N.; Sterenczak, K. A.; Sperlich, K.; Allgeier, S.; Köhler, B.; Mikut, R.; Bartschat, A.; Reichert, K.-M.; Guthoff, R. F.; Stachs, O.
2022. Der Ophthalmologe, 119 (Suppl 3), 170

Conserved and diverged asymmetric gene expression in the brain of teleosts
Agostini, C.; Bühler, A.; Antico Calderone, A.; Aadepu, N.; Herder, C.; Loosli, F.; Carl, M.
2022. Frontiers in Cell and Developmental Biology, 10, Art.-Nr.: 1005776. doi:10.3389/fcell.2022.1005776

Phenotypic Discovery of Triazolo[1,5- c ]quinazolines as a First-In-Class Bone Morphogenetic Protein Amplifier Chemotype
Wesseler, F.; Lohmann, S.; Riege, D.; Halver, J.; Roth, A.; Pichlo, C.; Weber, S.; Takamiya, M.; Müller, E.; Ketzel, J.; Flegel, J.; Gihring, A.; Rastegar, S.; Bertrand, J.; Baumann, U.; Knippschild, U.; Peifer, C.; Sievers, S.; Waldmann, H.; Schade, D.
2022. Journal of Medicinal Chemistry, 65 (22), 15263–15281. doi:10.1021/acs.jmedchem.2c01199

Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord
Sánchez-Iranzo, H.; Halavatyi, A.; Diz-Muñoz, A.
2022. eLife, 11, Art.-Nr.: e75429. doi:10.7554/eLife.75429

Biophysical studies on latarcins: antimicrobial peptides from spider venom
Wadhwani, P.; Sekaran, S.; Strandberg, E.; Burck, J.; Chugh, A.; Ulrich, A. S.
2022. Biophysical Journal, 121 (3), 220a-220a. doi:10.1016/j.bpj.2021.11.1632

Structure-activity investigations of antimicrobial (KL) $_{n}$ peptides
Strandberg, E.; Schweigardt, F.; Wadhwani, P.; Bürck, J.; Ulrich, A. S.
2022. Biophysical Journal, 121 (3), 219a-219a. doi:10.1016/j.bpj.2021.11.1627

Quantitative downhill skiing technique analysis according to ski instruction curricula: A proof-of-concept study applying principal component analysis on wearable sensor data
Debertin, D.; Wachholz, F.; Mikut, R.; Federolf, P.
2022. Frontiers in Bioengineering and Biotechnology, 10, Art.Nr. 1003619. doi:10.3389/fbioe.2022.1003619

Membranolytic Mechanism of Amphiphilic Antimicrobial β-Stranded [KL] $_{n}$ Peptides
Schweigardt, F.; Strandberg, E.; Wadhwani, P.; Reichert, J.; Bürck, J.; Cravo, H. L. P.; Burger, L.; Ulrich, A. S.
2022. Biomedicines, 10 (9), Art.-Nr.: 2071. doi:10.3390/biomedicines10092071

Highly Luminescent Positively Charged Quantum Dots Interacting with Proteins and Cells
Wang, H.; Nienhaus, K.; Shang, L.; Nienhaus, G. U.
2022. Chinese Journal of Chemistry, 40 (22), 2685–2693. doi:10.1002/cjoc.202200350

Pluripotency factors regulate the onset of Hox cluster activation in the early embryo
Tiana, M.; Lopez-Jimenez, E.; de Aja, J. S.; Barral, A.; Victorino, J.; Badia-Careaga, C.; Rollan, I.; Rouco, R.; Santos, E.; Sanchez-Iranzo, H.; Acemel, R. D.; Torroja, C.; Adan, J.; Andres-Leon, E.; Gomez-Skarmeta, J. L.; Giovinazzo, G.; Sanchez-Cabo, F.; Manzanares, M.
2022. Science Advances, 8 (28), 1–13. doi:10.1126/sciadv.abo3583

Adaptation of cell spreading to varying fibronectin densities and topographies is facilitated by β1 integrins
Lemma, E. D.; Jiang, Z.; Klein, F.; Landmann, T.; Weißenbruch, K.; Bertels, S.; Hippler, M.; Wehrle-Haller, B.; Bastmeyer, M.
2022. Frontiers in Bioengineering and Biotechnology, 10, Art.-Nr.: 964259. doi:10.3389/fbioe.2022.964259

EmbedTrack—Simultaneous Cell Segmentation and Tracking Through Learning Offsets and Clustering Bandwidths
Löffler, K.; Mikut, R.
2022. IEEE Access, 10, 77147–77157. doi:10.1109/ACCESS.2022.3192880

KaIDA: a modular tool for assisting image annotation in deep learning
Schilling, M. P.; Schmelzer, S.; Klinger, L.; Reischl, M.
2022. Journal of Integrative Bioinformatics, 19 (4), Art.-Nr.: 20220018. doi:10.1515/jib-2022-0018

Assessment of dynamic corneal nerve changes using static landmarks by in vivo large-area confocal microscopy—a longitudinal proof-of-concept study
Stache, N.; Sterenczak, K. A.; Sperlich, K.; Marfurt, C. F.; Allgeier, S.; Köhler, B.; Mikut, R.; Bartschat, A.; Reichert, K.-M.; Guthoff, R. F.; Stachs, A.; Stachs, O.; Bohn, S.
2022. Quantitative Imaging in Medicine and Surgery, 12 (10), 4734–4746. doi:10.21037/qims-22-15

Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements
Baranasic, D.; Hörtenhuber, M.; Balwierz, P. J.; Zehnder, T.; Mukarram, A. K.; Nepal, C.; Várnai, C.; Hadzhiev, Y.; Jimenez-Gonzalez, A.; Li, N.; Wragg, J.; D’Orazio, F. M.; Relic, D.; Pachkov, M.; Díaz, N.; Hernández-Rodríguez, B.; Chen, Z.; Stoiber, M.; Dong, M.; Stevens, I.; Ross, S. E.; Eagle, A.; Martin, R.; Obasaju, O.; Rastegar, S.; McGarvey, A. C.; Kopp, W.; Chambers, E.; Wang, D.; Kim, H. R.; Acemel, R. D.; Naranjo, S.; Łapiński, M.; Chong, V.; Mathavan, S.; Peers, B.; Sauka-Spengler, T.; Vingron, M.; Carninci, P.; Ohler, U.; Lacadie, S. A.; Burgess, S. M.; Winata, C.; van Eeden, F.; Vaquerizas, J. M.; Gómez-Skarmeta, J. L.; Onichtchouk, D.; Brown, B. J.; Bogdanovic, O.; van Nimwegen, E.; Westerfield, M.; Wardle, F. C.; Daub, C. O.; Lenhard, B.; Müller, F.
2022. Nature Genetics, 54, 1037–1050. doi:10.1038/s41588-022-01089-w

In vivo monitoring of corneal dendritic cells in the subbasal nerve plexus during Trastuzumab and Paclitaxel breast cancer therapy - a one-year follow-up
Bohn, S.; Stache, N.; Sperlich, K.; Allgeier, S.; Köhler, B.; Bartschat, A.; Do, H.-V.; George, C.; Guthoff, R. F.; Stachs, A.; Stachs, O.; Sterenczak, K. A.
2022. Diagnostics, 12 (5), 1180. doi:10.3390/diagnostics12051180

Probing and Manipulating the Lateral Pressure Profile in Lipid Bilayers Using Membrane-Active Peptides—A Solid-State 19F NMR Study
Grage, S. L.; Afonin, S.; Ieronimo, M.; Berditsch, M.; Wadhwani, P.; Ulrich, A. S.
2022. International Journal of Molecular Sciences, 23 (9), Art.-Nr.: 4544. doi:10.3390/ijms23094544

Resemblance-Ranking Peptide Library to Screen for Binders to Antibodies on a Peptidomic Scale
Jenne, F.; Biniaminov, S.; Biniaminov, N.; Marquardt, P.; Bojničić-Kninski, C. von; Popov, R.; Seckinger, A.; Hose, D.; Nesterov-Mueller, A.
2022. International Journal of Molecular Sciences, 23 (7), 3515. doi:10.3390/ijms23073515

Interdependence of Angiogenesis and Arteriogenesis in Development and Disease
le Noble, F.; Kupatt, C.
2022. International Journal of Molecular Sciences, 23 (7), Art.-Nr.: 3879. doi:10.3390/ijms23073879

A Zebrafish Model for a Rare Genetic Disease Reveals a Conserved Role for FBXL3 in the Circadian Clock System
Confino, S.; Dor, T.; Tovin, A.; Wexler, Y.; Ben-Moshe Livne, Z.; Kolker, M.; Pisanty, O.; Park, S. K.; Geyer, N.; Reiter, J.; Edvardson, S.; Mor-Shaked, H.; Elpeleg, O.; Vallone, D.; Appelbaum, L.; Foulkes, N. S.; Gothilf, Y.
2022. International Journal of Molecular Sciences, 23 (4), Artkl.Nr.: 2373. doi:10.3390/ijms23042373

Preparation, texture and surface chemistry characterization of nanoporous-activated carbons co-doped with fluorine and chlorine
Diyuk, V. E.; Zaderko, A. N.; Grishchenko, L. M.; Afonin, S.; Mariychuk, R.; Kaňuchová, M.; Lisnyak, V. V.
2022. Applied Nanoscience (Switzerland), 12, 2103–2116. doi:10.1007/s13204-022-02459-w

A Comparison of Energy-Efficient Seizure Detectors for Implantable Neurostimulation Devices
Manzouri, F.; Zöllin, M.; Schillinger, S.; Dümpelmann, M.; Mikut, R.; Woias, P.; Comella, L. M.; Schulze-Bonhage, A.
2022. Frontiers in Neurology, 12, Article: 703797. doi:10.3389/fneur.2021.703797

Loss of ASAP1 in the MMTV-PyMT model of luminal breast cancer activates AKT, accelerates tumorigenesis, and promotes metastasis
Schreiber, C.; Gruber, A.; Roßwag, S.; Saraswati, S.; Harkins, S.; Thiele, W.; Foroushani, Z. H.; Munding, N.; Schmaus, A.; Rothley, M.; Dimmler, A.; Tanaka, M.; Garvalov, B. K.; Sleeman, J. P.
2022. Cancer Letters, 533, Art.-Nr.: 215600. doi:10.1016/j.canlet.2022.215600

Machine learning with domain knowledge for predictive quality monitoring in resistance spot welding
Zhou, B.; Pychynski, T.; Reischl, M.; Kharlamov, E.; Mikut, R.
2022. Journal of Intelligent Manufacturing, 33, 1139–1163. doi:10.1007/s10845-021-01892-y

Methods for the frugal labeler: Multi-class semantic segmentation on heterogeneous labels
Schutera, M.; Rettenberger, L.; Pylatiuk, C.; Reischl, M.
2022. PLoS ONE, 17 (2), Art.-Nr.: e0263656. doi:10.1371/journal.pone.0263656

Simple assessment of viability in 2D and 3D cell microarrays using single step digital imaging
Popova, A. A.; Reischl, M.; Kazenmaier, D.; Cui, H.; Amberger, T.; Levkin, P. A.
2022. SLAS technology, 27 (1), 44–53. doi:10.1016/j.slast.2021.10.017

Mandipropamid as a chemical inducer of proximity for in vivo applications
Ziegler, M. J.; Yserentant, K.; Dunsing, V.; Middel, V.; Gralak, A. J.; Pakari, K.; Bargstedt, J.; Kern, C.; Petrich, A.; Chiantia, S.; Strähle, U.; Herten, D.-P.; Wombacher, R.
2022. Nature chemical biology, 18 (1), 64–69. doi:10.1038/s41589-021-00922-3

mdka Expression Is Associated with Quiescent Neural Stem Cells during Constitutive and Reactive Neurogenesis in the Adult Zebrafish Telencephalon
Lübke, L.; Zhang, G.; Strähle, U.; Rastegar, S.
2022. Brain Sciences, 12 (2), Art.Nr. 284. doi:10.3390/brainsci12020284

Design Strategy for Nanostructured Arrays of Metallodielectric Cuboids to Systematically Tune the Optical Response and Eliminate Spurious Bulk Effects in Plasmonic Biosensors
Grab, A. L.; Bacher, A.; Nesterov-Mueller, A.; Dahint, R.
2022. Bioengineering, 9 (2), 63. doi:10.3390/bioengineering9020063

Allele-specific endogenous tagging and quantitative analysis of β-catenin in colorectal cancer cells
Ambrosi, G.; Voloshanenko, O.; Eckert, A. F.; Kranz, D.; Nienhaus, G. U.; Boutros, M.
2022. eLife, 11. doi:10.7554/eLife.64498

Accurate Free Energies for Complex Condensed-Phase Reactions Using an Artificial Neural Network Corrected DFTB/MM Methodology
Gómez-Flores, C. L.; Maag, D.; Kansari, M.; Vuong, V.-Q.; Irle, S.; Gräter, F.; Kubař, T.; Elstner, M.
2022. Journal of Chemical Theory and Computation, 18 (2), 1213–1226. doi:10.1021/acs.jctc.1c00811

Automated Annotator Variability Inspection for Biomedical Image Segmentation
Schilling, M. P.; Scherr, T.; Munke, F. R.; Neumann, O.; Schutera, M.; Mikut, R.; Reischl, M.
2022. IEEE access, 10, 2753–2765. doi:10.1109/ACCESS.2022.3140378

Two plus one is almost three: a fast approximation for multi-view deconvolution
Hüpfel, M.; Fernández Merino, M.; Bennemann, J.; Takamiya, M.; Rastegar, S.; Tursch, A.; Holstein, T. W.; Nienhaus, G. U.
2022. Biomedical optics express, 13 (1), 147–158. doi:10.1364/BOE.443660

Early-life lead exposure induces long-term toxicity in the central nervous system: From zebrafish larvae to juveniles and adults
Wang, Z.; Zhao, H.; Xu, Y.; Zhao, J.; Song, Z.; Bi, Y.; Li, Y.; Lan, X.; Pan, C.; Foulkes, N. S.; Zhang, S.
2022. The science of the total environment, 804, Art.Nr. 150185. doi:10.1016/j.scitotenv.2021.150185

Development of an Experimental Setup for Real-Time In-Line Dissolved Ozone Measurement for Medical Therapy
Petani, L.; Wührl, L.; Koker, L.; Reischl, M.; Renz, J.; Gengenbach, U.; Pylatiuk, C.
2022. Ozone science & engineering, 44 (5), 499–509. doi:10.1080/01919512.2021.1932412

2021

Grid Screener: A Tool for Automated High-throughput Screening on Biochemical and Biological Analysis Platforms
Schilling, M. P.; Schmelzer, S.; Gómez, J. E. U.; Popova, A. A.; Levkin, P. A.; Reischl, M.
2021. IEEE access, 9, 166027–166038. doi:10.1109/ACCESS.2021.3135709

Wide-field mosaics of the corneal subbasal nerve plexus in Parkinson’s disease using in vivo confocal microscopy
Badian, R. A.; Allgeier, S.; Scarpa, F.; Andréasson, M.; Bartschat, A.; Mikut, R.; Colonna, A.; Bellisario, M.; Utheim, T. P.; Köhler, B.; Svenningsson, P.; Lagali, N.
2021. Scientific data, 8 (1), Article no: 306. doi:10.1038/s41597-021-01087-3

Divergence features of laser beams with angular momentum
Niziev, V. G.; Nesterov-Mueller, A.
2021. Quantum electronics, 51 (12), 1122–1126. doi:10.1070/QEL17658

TRIP6 functions in brain ciliogenesis
Shukla, S.; Haenold, R.; Urbánek, P.; Frappart, L.; Monajembashi, S.; Grigaravicius, P.; Nagel, S.; Min, W. K.; Tapias, A.; Kassel, O.; Heuer, H.; Wang, Z.-Q.; Ploubidou, A.; Herrlich, P.
2021. Nature Communications, 12 (1), Art.-Nr.: 5887. doi:10.1038/s41467-021-26057-6

Application of 3D MAPs pipeline identifies the morphological sequence chondrocytes undergo and the regulatory role of GDF5 in this process
Rubin, S.; Agrawal, A.; Stegmaier, J.; Krief, S.; Felsenthal, N.; Svorai, J.; Addadi, Y.; Villoutreix, P.; Stern, T.; Zelzer, E.
2021. Nature Communications, 12 (1), Article no: 5363. doi:10.1038/s41467-021-25714-0

A stochastic oscillator model simulates the entrainment of vertebrate cellular clocks by light
Kumpošt, V.; Vallone, D.; Gondi, S. B.; Foulkes, N. S.; Mikut, R.; Hilbert, L.
2021. Scientific reports, 11 (1), Art.-Nr.: 14497. doi:10.1038/s41598-021-93913-2

HDL biodistribution and brain receptors in zebrafish, using HDLs as vectors for targeting endothelial cells and neural progenitors
Sulliman, N. C.; Ghaddar, B.; Gence, L.; Patche, J.; Rastegar, S.; Meilhac, O.; Diotel, N.
2021. Scientific reports, 11 (1), Art. Nr.: 6439. doi:10.1038/s41598-021-85183-9

Transcription organizes euchromatin via microphase separation
Hilbert, L.; Sato, Y.; Kuznetsova, K.; Bianucci, T.; Kimura, H.; Jülicher, F.; Honigmann, A.; Zaburdaev, V.; Vastenhouw, N. L.
2021. Nature Communications, 12 (1), Article no: 1360. doi:10.1038/s41467-021-21589-3

Agglomeration State of Titanium-Dioxide (TiO2) Nanomaterials Influences the Dose Deposition and Cytotoxic Responses in Human Bronchial Epithelial Cells at the Air-Liquid Interface
Murugadoss, S.; Mülhopt, S.; Diabaté, S.; Ghosh, M.; Paur, H.-R.; Stapf, D.; Weiss, C.; Hoet, P. H.
2021. Nanomaterials, 11 (12), 3226. doi:10.3390/nano11123226

RASSF1A-Mediated Suppression of Estrogen Receptor Alpha (ERα)-Driven Breast Cancer Cell Growth Depends on the Hippo-Kinases LATS1 and 2
Roßwag, S.; Sleeman, J. P.; Thaler, S.
2021. Cells, 10 (11), Art. Nr.: 2868. doi:10.3390/cells10112868

Room-temperature ferromagnetic wide bandgap semiconducting fluorinated Graphene-hBN vertical heterostructures
Sahoo, K. R.; Sharma, R.; Bawari, S.; Vivek, S.; Rastogi, P. K.; Nair, S. S.; Grage, S. L.; Narayanan, T. N.
2021. Materials today, 21, Art.Nr. 100547. doi:10.1016/j.mtphys.2021.100547

SemML: Facilitating development of ML models for condition monitoring with semantics
Zhou, B.; Svetashova, Y.; Gusmao, A.; Soylu, A.; Cheng, G.; Mikut, R.; Waaler, A.; Kharlamov, E.
2021. Web semantics, 71, Art.Nr. 100664. doi:10.1016/j.websem.2021.100664

Pilotstudie zur Evaluation einer medizinisch-beruflich orientierten Rehabilitation für Pflegekräfte
Wittmann, C.; Papst, L.; Reischl, M.; Welsch, K.; Käfer, M.; Köllner, V.
2021. Zeitschrift für psychosomatische Medizin und Psychotherapie, 68 (2), 128–140. doi:10.13109/zptm.2021.67.oa13

Evaluierung von Merkmalen zur Abbildung von Veränderungen in ungeordneten Bilddaten = Evaluating features to represent changes in unstructured image data
Münke, F. R.; Schilling, M. P.; Mikut, R.; Reischl, M.
2021. Automatisierungstechnik, 69 (10), 892–902. doi:10.1515/auto-2021-0038

CAD-to-real: enabling deep neural networks for 3D pose estimation of electronic control units – A transferable and automated approach for industrial use cases = CAD-to-real: Eine Methode zum Einsatz tiefer neuronaler Netze bei der 3D-Lageerkennung von elektronischen Steuergeräten - Ein transferierbarer und automatisierter Ansatz für industrielle Anwendungen
Bäuerle, S.; Böhland, M.; Barth, J.; Reischl, M.; Steimer, A.; Mikut, R.
2021. Automatisierungstechnik, 69 (10), 880–891. doi:10.1515/auto-2021-0020

Ausgewählte Beiträge aus dem GMA-Fachausschuss 5.14 „Computational Intelligence“ [Editorial]
Mikut, R.; Kroll, A.; Schulte, H.
2021. Automatisierungstechnik, 69 (10), 817–819. doi:10.1515/auto-2021-0124

O to bR transition in bacteriorhodopsin occurs through a proton hole mechanism
Maag, D.; Mast, T.; Elstner, M.; Cui, Q.; Kubař, T.
2021. Proceedings of the National Academy of Sciences of the United States of America, 118 (39), Art.-Nr. e2024803118. doi:10.1073/pnas.2024803118

Diarylethene-Based Photoswitchable Inhibitors of Serine Proteases
Babii, O.; Afonin, S.; Diel, C.; Huhn, M.; Dommermuth, J.; Schober, T.; Koniev, S.; Hrebonkin, A.; Nesterov-Mueller, A.; Komarov, I. V.; Ulrich, A. S.
2021. Angewandte Chemie - International Edition, 60 (40), 21789–21794. doi:10.1002/anie.202108847

Development of a Benzothiazole Scaffold-Based Androgen Receptor N-Terminal Inhibitor for Treating Androgen-Responsive Prostate Cancer
Kuznik, N. C.; Solozobova, V.; Jung, N.; Gräßle, S.; Lei, Q.; Lewandowski, E. M.; Munuganti, R.; Zoubeidi, A.; Chen, Y.; Bräse, S.; Cato, A. C. B.
2021. ACS Chemical Biology, 16 (11), 2103–2108. doi:10.1021/acschembio.1c00390

Designing Inherently Photodegradable Cell‐Adhesive Hydrogels for 3D Cell Culture
Rosenfeld, A.; Göckler, T.; Kuzina, M.; Reischl, M.; Schepers, U.; Levkin, P. A.
2021. Advanced healthcare materials, 10 (16), Art.Nr. 2100632. doi:10.1002/adhm.202100632

Geometry dependence of excitonic couplings and the consequences for configuration-space sampling
Schieschke, N.; Bold, B. M.; Dohmen, P. M.; Wehl, D.; Hoffmann, M.; Dreuw, A.; Elstner, M.; Höfener, S.
2021. Journal of Computational Chemistry, 42 (20), 1402–1418. doi:10.1002/jcc.26552

Impact of Nanocomposite Combustion Aerosols on A549 Cells and a 3D Airway Model
Hufnagel, M.; May, N.; Wall, J.; Wingert, N.; Garcia-Käufer, M.; Arif, A.; Hübner, C.; Berger, M.; Mülhopt, S.; Baumann, W.; Weis, F.; Krebs, T.; Becker, W.; Gminski, R.; Stapf, D.; Hartwig, A.
2021. Nanomaterials, 11 (7), Art. Nr.: 1685. doi:10.3390/nano11071685

Impact of the interplay between stemness features, p53 and pol iota on replication pathway choices
Ihle, M.; Biber, S.; Schroeder, I. S.; Blattner, C.; Deniz, M.; Damia, G.; Gottifredi, V.; Wiesmüller, L.
2021. Nucleic acids research, 49 (13), 7457–7475. doi:10.1093/nar/gkab526

DNA-Directed Assembly of a Cell-Responsive Biohybrid Interface for Cargo Release
Sun, P.; Scharnweber, T.; Wadhwani, P.; Rabe, K. S.; Niemeyer, C. M.
2021. Small Methods, 5 (7), Art-Nr. 2001049. doi:10.1002/smtd.202001049

Correlation between Macroscopic Elasticity and Chain Dynamics of Natural Rubber during Vulcanization as Determined by a Unique Rheo-NMR Combination
Nie, S.; Ratzsch, K.-F.; Grage, S. L.; Keller, J.; Ulrich, A. S.; Lacayo-Pineda, J.; Wilhelm, M.
2021. Macromolecules, 54 (13), 6090–6100. doi:10.1021/acs.macromol.1c00354

TRIMming Down Hormone-Driven Cancers: The Biological Impact of TRIM Proteins on Tumor Development, Progression and Prognostication
Pauletto, E.; Eickhoff, N.; Padrão, N.; Blattner, C.; Zwart, W.
2021. Cells, 10 (6), Art.-Nr.: 1517. doi:10.3390/cells10061517

Long photoperiod impairs learning in male but not female medaka
López-Olmeda, J. F.; Zhao, H.; Reischl, M.; Pylatiuk, C.; Lucon-Xiccato, T.; Loosli, F.; Foulkes, N. S.
2021. iScience, 24 (7), Art. Nr.: 102784. doi:10.1016/j.isci.2021.102784

Simulation and evaluation of a body energy harvesting device for arm and leg swing motions
Petani, L.; Essig, S.; Zeilfelder, J.; Kortenhaus, M.; Pylatiuk, C.
2021. AIP Advances, 11 (6), 065201. doi:10.1063/5.0050424

Evaluation of four point cloud similarity measures for the use in autonomous driving
Berens, F.; Elser, S.; Reischl, M.
2021. Automatisierungstechnik, 69 (6), 499–510. doi:10.1515/auto-2020-0140

Chirality Remote Control in Nanoporous Materials by Circularly Polarized Light
Kanj, A. B.; Bürck, J.; Vankova, N.; Li, C.; Mutruc, D.; Chandresh, A.; Hecht, S.; Heine, T.; Heinke, L.
2021. Journal of the American Chemical Society, 143 (18), 7059–7068. doi:10.1021/jacs.1c01693

Photoreceptor Diversification Accompanies the Evolution of Anthozoa
Gornik, S. G.; Bergheim, B. G.; Benoit, M.; Stamatakis, A.; Foulkes, N. S.; Guse, A.
2021. Molecular biology and evolution, 38 (5), 1744–1760. doi:10.1093/molbev/msaa304

Enhancing deep-learning training for phase identification in powder X-ray diffractograms
Schuetzke, J.; Benedix, A.; Mikut, R.; Reischl, M.
2021. IUCrJ, 8 (3). doi:10.1107/S2052252521002402

Analytical Time-Dependent Long-Range Corrected Density Functional Tight Binding (TD-LC-DFTB) Gradients in DFTB+: Implementation and Benchmark for Excited-State Geometries and Transition Energies
Sokolov, M.; Bold, B. M.; Kranz, J. J.; Höfener, S.; Niehaus, T. A.; Elstner, M.
2021. Journal of Chemical Theory and Computation, 17 (4), 2266–2282. doi:10.1021/acs.jctc.1c00095

Regulation of ddb2 expression in blind cavefish and zebrafish reveals plasticity in the control of sunlight-induced DNA damage repair
Zhao, H.; Li, H.; Du, J.; Di Mauro, G.; Lungu-Mitea, S.; Geyer, N.; Vallone, D.; Bertolucci, C.; Foulkes, N. S.
2021. PLoS Genetics, 17 (2), Art.-Nr. e1009356. doi:10.1371/JOURNAL.PGEN.1009356

Cell Proliferation and Collective Cell Migration During Zebrafish Lateral Line System Development Are Regulated by Ncam/Fgf-Receptor Interactions
Dries, R.; Lange, A.; Heiny, S.; Berghaus, K. I.; Bastmeyer, M.; Bentrop, J.
2021. Frontiers in Cell and Developmental Biology, 8, Art.-Nr.: 591011. doi:10.3389/fcell.2020.591011

Parkinson’s disease with restless legs syndrome - an in vivo corneal confocal microscopy study
Andréasson, M.; Lagali, N.; Badian, R. A.; Utheim, T. P.; Scarpa, F.; Colonna, A.; Allgeier, S.; Bartschat, A.; Köhler, B.; Mikut, R.; Reichert, K.-M.; Solders, G.; Samuelsson, K.; Zetterberg, H.; Blennow, K.; Svenningsson, P.
2021. npj Parkinson’s Disease, 7 (1), Art.-Nr. 4. doi:10.1038/s41531-020-00148-5

Cancer microenvironment and genomics: evolution in process
Leong, S. P.; Witz, I. P.; Sagi-Assif, O.; Izraely, S.; Sleeman, J.; Piening, B.; Fox, B. A.; Bifulco, C. B.; Martini, R.; Newman, L.; Davis, M.; Sanders, L. M.; Haussler, D.; Vaske, O. M.; Witte, M.
2021. Clinical & experimental metastasis, 39, 85–99. doi:10.1007/s10585-021-10097-9

In Vitro and In Vivo Toxicity Evaluation of Natural Products with Potential Applications as Biopesticides
Sangermano, F.; Masi, M.; Kumar, A.; Peravali, R.; Tuzi, A.; Cimmino, A.; Vallone, D.; Giamundo, G.; Conte, I.; Evidente, A.; Calabrò, V.
2021. Toxins, 13 (11), Art. Nr.: 805. doi:10.3390/toxins13110805

Methylmercury-induced hair cell loss requires hydrogen peroxide production and leukocytes in zebrafish embryos
Luo, Z.; Guo, S.; Ho, N. Y.; Takamiya, M.; Strähle, U.; Yang, L.
2021. Toxicology Letters, 356, 151–160. doi:10.1016/j.toxlet.2021.12.012

Tough, Transparent, 3D printable and Self‐healing Polyethylene Glycol‐Gel (PEGgel)
Wang, Z.; Cui, H.; Liu, M.; Grage, S. L.; Hoffmann, M.; Sedghamiz, E.; Wenzel, W.; Levkin, P. A.
2021. Advanced materials, 34 (11), 2107791. doi:10.1002/adma.202107791

Antibiotic Potential and Biophysical Characterization of Amphipathic β-Stranded [XZ]n Peptides With Alternating Cationic and Hydrophobic Residues
Strandberg, E.; Wadhwani, P.; Ulrich, A. S.
2021. Frontiers in Medical Technology, 3. doi:10.3389/fmedt.2021.622096

Remarkably high solvatochromism in the circular dichroism spectra of the polyproline-II conformation: limitations or new opportunities?
Kubyshkin, V.; Bürck, J.; Babii, O.; Budisa, N.; Ulrich, A. S.
2021. Physical chemistry, chemical physics, 23 (47), 26931–26939. doi:10.1039/d1cp04551b

Rational Designed Hybrid Peptides Show up to a 6-Fold Increase in Antimicrobial Activity and Demonstrate Different Ultrastructural Changes as the Parental Peptides Measured by BioSAXS
Hilpert, K.; Gani, J.; Rumancev, C.; Simpson, N.; Lopez-Perez, P. M.; Garamus, V. M.; Gundlach, A. R. von; Markov, P.; Scocchi, M.; Mikut, R.; Rosenhahn, A.
2021. Frontiers in pharmacology, 12, Article no: 769739. doi:10.3389/fphar.2021.769739

Membrane-Mediated Activity of Local Anesthetics
Grage, S. L.; Culetto, A.; Ulrich, A. S.; Weinschenk, S.
2021. Molecular pharmacology, 100 (5), 502–512. doi:10.1124/molpharm.121.000252

Electrostatic interactions contribute to the control of intramolecular thiol-disulfide isomerization in a protein
Maag, D.; Putzu, M.; Gómez-Flores, C. L.; Gräter, F.; Elstner, M.; Kubař, T.
2021. Physical Chemistry Chemical Physics, 23 (46), 26366–26375. doi:10.1039/d1cp03129e

Machine learning methods for automated classification of tumors with papillary thyroid carcinoma-like nuclei : A quantitative analysis
Böhland, M.; Tharun, L.; Scherr, T.; Mikut, R.; Hagenmeyer, V.; Thompson, L. D. R.; Perner, S.; Reischl, M.
2021. PLOS ONE, 16 (9), e0257635. doi:10.1371/journal.pone.0257635

Toxicology and Biocompatibility of Nanomaterials : Editorial
Weiss, C.; Diabaté, S.
2021. Nanomaterials, 11 (11), Art.-Nr.: 3110. doi:10.3390/nano11113110

A Core Response to the CDX2 Homeoprotein During Development and in Pathologies
Gourain, V.; Duluc, I.; Domon-Dell, C.; Freund, J.-N.
2021. Frontiers in Genetics, 12, Art.Nr. 744165. doi:10.3389/fgene.2021.744165

Quantitative detection of disseminated melanoma cells by trp-1 transcript analysis reveals stochastic distribution of pulmonary metastases
Kyjacova, L.; Saup, R.; Rothley, M.; Schmaus, A.; Wagner, T.; Boßerhoff, A.; Garvalov, B. K.; Thiele, W.; Sleeman, J. P.
2021. Journal of Clinical Medicine, 10 (22), Art.Nr. 5459. doi:10.3390/jcm10225459

Classification of Bundle Branch Blocks with QRS Templates Extracted from 12-lead ECGs
Welle, H.; Nagel, C.; Loewe, A.; Mikut, R.; Dössel, O.
2021. Biomedical engineering, 66 (s1), S228–S233. doi:10.1515/bmt-2021-6033

Influence of contact cap design on large-area imaging of the subbasal nerve plexus
Bohn, S.; Sperlich, K.; Allgeier, S.; Bartschat, A.; Reichert, K.-M.; Kornelius, L.; Mikut, R.; Köhler, B.; Stachs, O.
2021. Biomedical engineering, 66 (s1), S124. doi:10.1515/bmt-2021-6018

A software framework for real-time image mosaicking of the corneal subbasal nerve plexus
Köhler, B.; Kornelius, L.; Bartschat, A.; Bohn, S.; Mikut, R.; Reichert, K.-M.; Sperlich, K.; Stachs, O.; Allgeier, S.
2021. Biomedical engineering, 66 (s1), S121

Strain-Specific Liver Metabolite Profiles in Medaka
Soergel, H.; Loosli, F.; Muhle-Goll, C.
2021. Metabolites, 11 (11), Art.-Nr.: 744. doi:10.3390/metabo11110744

Neuron-Radial Glial Cell Communication via BMP/Id1 Signaling Is Key to Long-Term Maintenance of the Regenerative Capacity of the Adult Zebrafish Telencephalon
Zhang, G.; Lübke, L.; Chen, F.; Beil, T.; Takamiya, M.; Diotel, N.; Strähle, U.; Rastegar, S.
2021. Cells, 10 (10), Art.-Nr.: 2794. doi:10.3390/cells10102794

Systematic assessment of the biocompatibility of materials for inkjet-printed ozone sensors for medical therapy
Petani, L.; Wehrheim, V.; Koker, L.; Reischl, M.; Ungerer, M.; Gengenbach, U.; Pylatiuk, C.
2021. Flexible and printed electronics, 6 (4), Art.-Nr.: 043003. doi:10.1088/2058-8585/ac32ab

IER2-induced senescence drives melanoma invasion through osteopontin
Kyjacova, L.; Saup, R.; Rönsch, K.; Wallbaum, S.; Dukowic-Schulze, S.; Foss, A.; Scherer, S. D.; Rothley, M.; Neeb, A.; Grau, N.; Thiele, W.; Thaler, S.; Cremers, N.; Sticht, C.; Gretz, N.; Garvalov, B. K.; Utikal, J.; Sleeman, J. P.
2021. Oncogene, 40, 6494–6412. doi:10.1038/s41388-021-02027-6

Is There a Connection Between Gut Microbiome Dysbiosis Occurring in COVID-19 Patients and Post-COVID-19 Symptoms?
Hilpert, K.; Mikut, R.
2021. Frontiers in Microbiology, 12, Art.-Nr.: 732838. doi:10.3389/fmicb.2021.732838

Micro-scaffolds as synthetic cell niches: recent advances and challenges
Weißenbruch, K.; Lemma, E. D.; Hippler, M.; Bastmeyer, M.
2021. Current Opinion in Biotechnology, 73, 290–299. doi:10.1016/j.copbio.2021.08.016

RNA polymerase II clusters form in line with surface condensation on regulatory chromatin
Pancholi, A.; Klingberg, T.; Zhang, W.; Prizak, R.; Mamontova, I.; Noa, A.; Sobucki, M.; Kobitski, A. Y.; Nienhaus, G. U.; Zaburdaev, V.; Hilbert, L.
2021. Molecular Systems Biology, 17 (9), Art.Nr. e10272. doi:10.15252/msb.202110272

Membrane interactions of latarcins: Antimicrobial peptides from spider venom
Wadhwani, P.; Sekaran, S.; Strandberg, E.; Bürck, J.; Chugh, A.; Ulrich, A. S.
2021. International Journal of Molecular Sciences, 22 (18), Art.-Nr.: 10156. doi:10.3390/ijms221810156

Period 2: A Regulator of Multiple Tissue-Specific Circadian Functions
Ruggiero, G.; Ben-Moshe Livne, Z.; Wexler, Y.; Geyer, N.; Vallone, D.; Gothilf, Y.; Foulkes, N. S.
2021. Frontiers in Molecular Neuroscience, 14, Art.Nr. 718387. doi:10.3389/fnmol.2021.718387

A Systematic Analysis of Metal and Metalloid Concentrations in Eight Zebrafish Recirculating Water Systems
Langa, X.; Neuhaus, P.; Lains, D.; Stewart, T. J.; Borel, N.; Certal, A. C.; Monteiro, J. F.; Aleström, P.; Diaz, E.; Piragyte, I.; Bräutigam, L.; Vázquez, R.; Hlushchuk, R.; Gfeller, L.; Mestrot, A.; Bigalke, M.; Varga, Z. M.; Mercader, N.
2021. Zebrafish, 18 (4), 252–264. doi:10.1089/zeb.2020.1970

The Combinatorial Fusion Cascade to Generate the Standard Genetic Code
Nesterov-Mueller, A.; Popov, R.
2021. Life, 11 (9), Art.-Nr.: 975. doi:10.3390/life11090975

A graph-based cell tracking algorithm with few manually tunable parameters and automated segmentation error correction
Löffler, K.; Scherr, T.; Mikut, R.
2021. PLOS ONE, 16 (9), e0249257. doi:10.1371/journal.pone.0249257

An Automated Experimentation System for the Touch-Response Quantification of Zebrafish Larvae
Wang, Y.; Marcato, D.; Tirumalasetty, V.; Kanagaraj, N. K.; Pylatiuk, C.; Mikut, R.; Peravali, R.; Reischl, M.
2021. IEEE transactions on automation science and engineering, 19 (4), 3007–3019. doi:10.1109/TASE.2021.3104507

Distinct roles of nonmuscle myosin ii isoforms for establishing tension and elasticity during cell morphodynamics
Weißenbruch, K.; Grewe, J.; Hippler, M.; Fladung, M.; Tremmel, M.; Stricker, K.; Schwarz, U. S.; Bastmeyer, M.
2021. eLife, 10, e71888. doi:10.7554/ELIFE.71888

Chiral Resolution of Spin-Crossover Active Iron(II) [2x2] Grid Complexes
Suryadevara, N.; Pausch, A.; Moreno-Pineda, E.; Mizuno, A.; Bürck, J.; Baksi, A.; Hochdörffer, T.; Šalitroš, I.; Ulrich, A. S.; Kappes, M. M.; Schünemann, V.; Klopper, W.; Ruben, M.
2021. Chemistry - A European Journal, 27 (61), 15172–15180. doi:10.1002/chem.202101432

Fungal phytochrome chromophore biosynthesis at mitochondria
Streng, C.; Hartmann, J.; Leister, K.; Krauß, N.; Lamparter, T.; Frankenberg-Dinkel, N.; Weth, F.; Bastmeyer, M.; Yu, Z.; Fischer, R.
2021. EMBO Journal, 40 (17), Art.-Nr.: e108083. doi:10.15252/embj.2021108083

Order and disorder - An integrative structure of the full-length human growth hormone receptor
Kassem, N.; Araya-Secchi, R.; Bugge, K.; Barclay, A.; Steinocher, H.; Khondker, A.; Wang, Y.; Lenard, A. J.; Bürck, J.; Sahin, C.; Ulrich, A. S.; Landreh, M.; Pedersen, M. C.; Rheinstädter, M. C.; Pedersen, P. A.; Lindorff-Larsen, K.; Arleth, L.; Kragelund, B. B.
2021. Science Advances, 7 (27), Art.-Nr.: eabh3805. doi:10.1126/sciadv.abh3805

CDX2 expression in the hematopoietic lineage promotes leukemogenesis via TGFβ inhibition
Galland, A.; Gourain, V.; Habbas, K.; Güler, Y.; Martin, E.; Ebel, C.; Tavian, M.; Vallat, L.; Chenard, M.-P.; Mauvieux, L.; Freund, J.-N.; Duluc, I.; Domon-Dell, C.
2021. Molecular Oncology, 15 (9), 2318–2329. doi:10.1002/1878-0261.12982

In Vivo Behavior of the Antibacterial Peptide Cyclo[RRRWFW], Explored Using a 3-Hydroxychromone-Derived Fluorescent Amino Acid
Afonin, S.; Koniev, S.; Préau, L.; Takamiya, M.; Strizhak, A. V.; Babii, O.; Hrebonkin, A.; Pivovarenko, V. G.; Dathe, M.; Noble, F. le; Rastegar, S.; Strähle, U.; Ulrich, A. S.; Komarov, I. V.
2021. Frontiers in Chemistry, 9, Art. Nr.: 688446. doi:10.3389/fchem.2021.688446

The LIM domain protein nTRIP6 modulates the dynamics of myogenic differentiation
Norizadeh Abbariki, T.; Gonda, Z.; Kemler, D.; Urbanek, P.; Wagner, T.; Litfin, M.; Wang, Z.-Q.; Herrlich, P.; Kassel, O.
2021. Scientific Reports, 11 (1), Art.Nr. 12904. doi:10.1038/s41598-021-92331-8

Regulation of p53 by E3s
Pan, M.; Blattner, C.
2021. Cancers, 13 (4), Art.Nr. 745. doi:10.3390/cancers13040745

Structural analysis of a genetically encoded fret biosensor by SAXS and MD simulations
Reinartz, I.; Sarter, M.; Otten, J.; Höfig, H.; Pohl, M.; Schug, A.; Stadler, A. M.; Fitter, J.
2021. Sensors, 21 (12), Art.Nr. 4144. doi:10.3390/s21124144

I-care-an interaction system for the individual activation of people with dementia
Schultz, T.; Putze, F.; Steinert, L.; Mikut, R.; Depner, A.; Kruse, A.; Franz, I.; Gaerte, P.; Dimitrov, T.; Gehrig, T.; Lohse, J.; Simon, C.
2021. Geriatrics (Switzerland), 6 (2), 51. doi:10.3390/geriatrics6020051

Droplet microarrays for cell culture: effect of surface properties and nanoliter culture volume on global transcriptomic landscape
Chakraborty, S.; Gourain, V.; Benz, M.; Scheiger, J. M.; Levkin, P. A.; Popova, A. A.
2021. Materials Today Bio, 11, Art.-Nr.: 100112. doi:10.1016/j.mtbio.2021.100112

Multi-Dimensional Transcriptome Analysis Reveals Modulation of Cholesterol Metabolism as Highly Integrated Response to Brain Injury
Gourain, V.; Armant, O.; Lübke, L.; Diotel, N.; Rastegar, S.; Strähle, U.
2021. Frontiers in neuroscience, 15, Article no: 671249. doi:10.3389/fnins.2021.671249

Overlapping Properties of the Short Membrane-Active Peptide BP100 With (i) Polycationic TAT and (ii) α-helical Magainin Family Peptides
Mink, C.; Strandberg, E.; Wadhwani, P.; Melo, M. N.; Reichert, J.; Wacker, I.; Castanho, M. A. R. B.; Ulrich, A. S.
2021. Frontiers in Cellular and Infection Microbiology, 11, Art.-Nr.: 609542. doi:10.3389/fcimb.2021.609542

Performance of Different Diagnostic PD-L1 Clones in Head and Neck Squamous Cell Carcinoma
Ribbat-Idel, J.; Dressler, F. F.; Krupar, R.; Watermann, C.; Paulsen, F.-O.; Kuppler, P.; Klapper, L.; Offermann, A.; Wollenberg, B.; Rades, D.; Laban, S.; Reischl, M.; Bruchhage, K.-L.; Idel, C.; Perner, S.
2021. Frontiers in Medicine, 8, Art.-Nr.: 640515. doi:10.3389/fmed.2021.640515

Nature of Fast Relaxation Processes and Spectroscopy of a Membrane-Active Peptide Modified with Fluorescent Amino Acid Exhibiting Excited State Intramolecular Proton Transfer and Efficient Stimulated Emission
Shaydyuk, Y. O.; Bashmakova, N. V.; Dmytruk, A. M.; Kachkovsky, O. D.; Koniev, S.; Strizhak, A. V.; Komarov, I. V.; Belfield, K. D.; Bondar, M. V.; Babii, O.
2021. ACS Omega, 6 (15), 10119–10128. doi:10.1021/acsomega.1c00193

Burst of corneal dendritic cells during Trastuzumab and Paclitaxel treatment
Sterenczak, K. A.; Stache, N.; Bohn, S.; Allgeier, S.; Köhler, B.; Bartschat, A.; George, C.; Guthoff, R. F.; Stachs, O.; Stachs, A.
2021. Diagnostics, 11 (5), Art.Nr. 838. doi:10.3390/diagnostics11050838

The hierarchical packing of euchromatin domains can be described as multiplicative cascades
Noa, A.; Kuan, H.-S.; Aschmann, V.; Zaburdaev, V.; Hilbert, L.
2021. PLoS Computational Biology, 17 (5), e1008974. doi:10.1371/journal.pcbi.1008974

Functional characterization of circulating tumor cells (CTCs) from metastatic ER+/HER2− breast cancer reveals dependence on HER2 and FOXM1 for endocrine therapy resistance and tumor cell survival: Implications for treatment of ER+/HER2− breast cancer
Roßwag, S.; Cotarelo, C. L.; Pantel, K.; Riethdorf, S.; Sleeman, J. P.; Schmidt, M.; Thaler, S.
2021. Cancers, 13 (8), Art.-Nr.: 1810. doi:10.3390/cancers13081810

Multiscale QM/MM molecular dynamics simulations of the trimeric major light-harvesting complex II
Maity, S.; Daskalakis, V.; Elstner, M.; Kleinekathöfer, U.
2021. Physical Chemistry Chemical Physics, 23 (12), 7407–7417. doi:10.1039/d1cp01011e

Interplay of structural dynamics and electronic effects in an engineered assembly of pentacene in a metal–organic framework
Haldar, R.; Kozlowska, M.; Ganschow, M.; Ghosh, S.; Jakoby, M.; Chen, H.; Ghalami, F.; Xie, W.; c; Tsutsui, Y.; Freudenberg, J.; Seki, S.; Howard, I. A.; Richards, B. S.; Bunz, U. H. F.; Elstner, M.; Wenzel, W.; Wöll, C.
2021. Chemical science, 12 (12), 4477–4483. doi:10.1039/d0sc07073d

Finding Nemo’s clock reveals switch from nocturnal to diurnal activity
Schalm, G.; Bruns, K.; Drachenberg, N.; Geyer, N.; Foulkes, N. S.; Bertolucci, C.; Gerlach, G.
2021. Scientific Reports, 11 (1), Art.-Nr.: 6801. doi:10.1038/s41598-021-86244-9

Cellular Mechanisms Participating in Brain Repair of Adult Zebrafish and Mammals after Injury
Ghaddar, B.; Lübke, L.; Couret, D.; Rastegar, S.; Diotel, N.
2021. Cells, 10 (2), 391. doi:10.3390/cells10020391

Substitutional landscape of a split fluorescent protein fragment using high-density peptide microarrays
Antonescu, O. N.; Rasmussen, A.; Damm, N. A. M.; Heidemann, D. F.; Popov, R.; Nesterov-Mueller, A.; Johansson, K. E.; Winther, J. R.
2021. PLOS ONE, 16 (2), Article: e0241461. doi:10.1371/journal.pone.0241461

Boron-rich, cytocompatible block copolymer nanoparticles by polymerization-induced self-assembly
Huang, L. C. S.; Le, D.; Hsiao, I. L.; Fritsch-Decker, S.; Hald, C.; Huang, S.-C.; Chen, J.-K.; Hwu, J. R.; Weiss, C.; Hsu, M.-H.; Delaittre, G.
2021. Polymer chemistry, 12 (1), 50–56. doi:10.1039/d0py00710b

Atypical cellular elements of unknown origin in the subbasal nerve plexus of a diabetic cornea diagnosed by large-area confocal laser scanning microscopy
Sterenczak, K. A.; Stachs, O.; Marfurt, C.; Matuszewska-Iwanicka, A.; Stratmann, B.; Sperlich, K.; Guthoff, R. F.; Hettlich, H.-J.; Allgeier, S.; Stahnke, T.
2021. Diagnostics, 11 (2), Article no: 154. doi:10.3390/diagnostics11020154

Effects of incremental endosulfan sulfate exposure and high fat diet on lipid metabolism, glucose homeostasis and gut microbiota in mice
Yan, J.; Wang, D.; Meng, Z.; Yan, S.; Teng, M.; Jia, M.; Li, R.; Tian, S.; Weiss, C.; Zhou, Z.; Zhu, W.
2021. Environmental pollution, 268 (A), Art.-Nr.: 115697. doi:10.1016/j.envpol.2020.115697

Novel Approaches for Cancer Therapy

Prostate and breast cancer can become resistant to established hormone treatments, in particular due to mutations in the hormone receptor regions. Researchers at the Karlsruhe Institute of Technology (KIT) are pursuing an innovative approach that could help to circumvent the resistance of tumor cells to hormone treatments: They are finding inhibitors that do not act directly on the receptors, but on other proteins and influence their activity.

More (German only)

How Cells Correctly Choose Active Genes

It is essential for cells to control precisely which of the many genes of their genetic material they use. This is done in so-called transcription factories, molecular clusters in the nucleus. Researchers of Karlsruhe Institute of Technology (KIT), Friedrich-Alexander-Universität Erlangen-Nuremberg (FAU), and Max Planck Center for Physics and Medicine (MPZPM) have now found that the formation of transcription factories resembles the condensation of liquids. Their findings will improve the understanding of causes of diseases and advance the development of DNA-based data storage systems. The scientists report in Molecular Systems Biology (10.15252/msb.202110272).

Zwei Tage alte Zebrafischembryonen in der Eihülle

Health protection: More safety from hazardous substances

Chemicals can cause health problems even in small quantities if you are exposed to them for a longer period of time. Protecting people from hazardous substances is the goal of the EU project PrecisionTox, in which the Karlsruhe Institute of Technology (KIT) plays a major role. KIT is responsible for the work package "Comparative Toxicology" and contributes its extensive experience in molecular toxicology, zebrafish research, and high-throughput microscopy. With the aid of bioinformatic analysis, computer modeling and artificial intelligence, the data will reveal the mode of action of a wide variety of substances on complex biological processes and thus allow predictions about the biological effects of chemicals. In the future, harmful substances should be identified more quickly and reliably before they reach the market and the environment.

EU project PrecisionTox

Microphase Separation In The Cell Nucleus

Lennart Hilbert has contributed to a study that addresses how active and inactive genes are separated inside the cell nucleus. The according article ’Transcription organizes euchromatin via microphase separation' was recently published in the journal Nature Communications (DOI: 10.1038/s41467-021-21589-3).

Source: KIT / ICBS-BIP