Multibody Terms in Protein Coarse-Grained Models: A Top-Down Perspective.
Zaporozhets, I. & Clementi, C.
The journal of physical chemistry. B 127, 6920-6927,
doi:10.1021/acs.jpcb.3c04493
Slicing and Dicing: Optimal Coarse-Grained Representation to Preserve Molecular Kinetics.
Yang, W., Templeton, C., Rosenberger, D., Bittracher, A., Nüske, F., Noé, F. & Clementi, C.
ACS central science 9, 186-196,
doi:10.1021/acscentsci.2c01200
Probing coenzyme A homeostasis with semisynthetic biosensors.
Xue, L., Schnacke, P., Frei, M. S., Koch, B., Hiblot, J., Wombacher, R., Fabritz, S. & Johnsson, K.
Nature Chemical Biology 19, 346-355,
doi:10.1038/s41589-022-01172-7
STED imaging of endogenously tagged ARF GTPases reveals their distinct nanoscale localizations.
Wong-Dilworth, L., Rodilla-Ramirez, C., Fox, E., Restel, S. D., Stockhammer, A., Adarska, P. & Bottanelli, F.
Journal of Cell Biology 222,
doi:10.1083/jcb.202205107
The Ebola virus VP40 matrix layer undergoes endosomal disassembly essential for membrane fusion.
Winter, S. L., Golani, G., Lolicato, F., Vallbracht, M., Thiyagarajah, K., Ahmed, S. S., Lüchtenborg, C., Fackler, O. T., Brügger, B., Hoenen, T., Nickel, W., Schwarz, U. S. & Chlanda, P.
The EMBO journal 42, e113578,
doi:10.15252/embj.2023113578
Conformation-dependent ligand hot spots in the spliceosomal RNA helicase BRR2.
Vester, K., Metz, A., Huber, S., Loll, B. & Wahl, M. C.
Acta crystallographica. Section D, Structural biology 79, 304-317,
doi:10.1107/S2059798323001778
The GAPDH redox switch safeguards reductive capacity and enables survival of stressed tumour cells.
Talwar, D., Miller, C. G., Grossmann, J., Szyrwiel, L., Schwecke, T., Demichev, V., Mikecin Drazic, A.-M., Mayakonda, A., Lutsik, P., Veith, C., Milsom, M. D., Müller-Decker, K., Mülleder, M., Ralser, M. & Dick, T. P.
Nature Metabolism 5, 660-676,
doi:10.1038/s42255-023-00781-3
Adaptation to glucose starvation is associated with molecular reorganization of the circadian clock in Neurospora crassa.
Szőke, A., Sárkány, O., Schermann, G., Kapuy, O., Diernfellner, A. C. R., Brunner, M., Gyöngyösi, N. & Káldi, K.
eLife 12,
doi:10.7554/eLife.79765
Stress-induced nuclear speckle reorganization is linked to activation of immediate early gene splicing.
Sung, H.-M., Schott, J., Boss, P., Lehmann, J. A., Hardt, M. R., Lindner, D., Messens, J., Bogeski, I., Ohler, U. & Stoecklin, G.
The Journal of cell biology 222,
doi:10.1083/jcb.202111151
Alternative polyadenylation factor CPSF6 regulates temperature compensation of the mammalian circadian clock.
Schmal, C., Maier, B., Ashwal-Fluss, R., Bartok, O., Finger, A.-M., Bange, T., Koutsouli, S., Robles, M. S., Kadener, S., Herzel, H. & Kramer, A.
PLoS biology 21, e3002164,
doi:10.1371/journal.pbio.3002164
An antagonism between Spinophilin and Syd-1 operates upstream of memory-promoting presynaptic long-term plasticity.
Ramesh, N., Escher, M., Turrel, O., Lützkendorf, J., Matkovic, T., Liu, F. & Sigrist, S. J.
eLife Sciences Publications, Ltd,
doi:10.7554/elife.86084
Enhanced SARS-CoV-2 entry via UPR-dependent AMPK-related kinase NUAK2.
Prasad, V., Cerikan, B., Stahl, Y., Kopp, K., Magg, V., Acosta-Rivero, N., Kim, H., Klein, K., Funaya, C., Haselmann, U., Cortese, M., Heigwer, F., Bageritz, J., Bitto, D., Jargalsaikhan, S., Neufeldt, C., Pahmeier, F., Boutros, M., Yamauchi, Y., Ruggieri, A. & Bartenschlager, R.
Molecular cell 83, 2559-2577.e2558,
doi:10.1016/j.molcel.2023.06.020
3-Mercaptopyruvate sulfur transferase is a protein persulfidase.
Pedre, B., Talwar, D., Barayeu, U., Schilling, D., Luzarowski, M., Sokolowski, M., Glatt, S. & Dick, T. P.
Nature Chemical Biology 19, 507-517,
doi:10.1038/s41589-022-01244-8
Transcription activator WCC recruits deacetylase HDA3 to control transcription dynamics and bursting in Neurospora.
Oehler, M., Geisser, L., Diernfellner, A. C. R. & Brunner, M.
Science advances 9, eadh0721,
doi:10.1126/sciadv.adh0721
Competition for cysteine acylation by C16:0 and C18:0 derived lipids is a global phenomenon in the proteome.
Nůsková, H., Cortizo, F. G., Schwenker, L. S., Sachsenheimer, T., Diakonov, E. E., Tiebe, M., Schneider, M., Lohbeck, J., Reid, C., Kopp-Schneider, A., Helm, D., Brügger, B., Miller, A. K. & Teleman, A. A.
The Journal of biological chemistry 299, 105088,
doi:10.1016/j.jbc.2023.105088
The role of an amphiphilic helix and transmembrane region in the efficient acylation of the M2 protein from influenza virus.
Meng, X., Templeton, C., Clementi, C. & Veit, M.
Scientific Reports 13, 18928,
doi:10.1038/s41598-023-45945-z
Machine learning coarse-grained potentials of protein thermodynamics.
Majewski, M., Pérez, A., Thölke, P., Doerr, S., Charron, N. E., Giorgino, T., Husic, B. E., Clementi, C., Noé, F. & Fabritiis, G.
Nature Communications 14, 5739,
doi:10.1038/s41467-023-41343-1
CaMKII autophosphorylation can occur between holoenzymes without subunit exchange.
Lučić, I., Héluin, L., Jiang, P.-L., Castro Scalise, A. G., Wang, C., Franz, A., Heyd, F., Wahl, M. C., Liu, F. & Plested, A. J. R.
eLife 12,
doi:10.7554/eLife.86090
One Scaffold, Two Conformations: The Ring-Flip of the Messenger InsP8 Occurs under Cytosolic Conditions.
Kurz, L., Schmieder, P., Veiga, N. & Fiedler, D.
Biomolecules 13,
doi:10.3390/biom13040645
In vivo characterization of the bacterial intramembrane-cleaving protease RseP using the heme binding tag-based assay iCliPSpy.
Kupke, T., Götz, R. M., Richter, F. M., Beck, R., Lolicato, F., Nickel, W., Hopf, C. & Brügger, B.
Communications biology 6, 287,
doi:10.1038/s42003-023-04654-z
Statistically Optimal Force Aggregation for Coarse-Graining Molecular Dynamics.
Krämer, A., Durumeric, A. E. P., Charron, N. E., Chen, Y., Clementi, C. & Noé, F.
The journal of physical chemistry letters 14, 3970-3979,
doi:10.1021/acs.jpclett.3c00444
Exchangeable HaloTag Ligands for Super-Resolution Fluorescence Microscopy.
Kompa, J., Bruins, J., Glogger, M., Wilhelm, J., Frei, M. S., Tarnawski, M., D'Este, E., Heilemann, M., Hiblot, J. & Johnsson, K.
Journal of the American Chemical Society 145, 3075-3083,
doi:10.1021/jacs.2c11969
Systematic functional analysis of rab GTPases reveals limits of neuronal robustness to environmental challenges in flies.
Kohrs, F. E., Daumann, I.-m., Pavlovic, B., Jin, E. J., Kiral, F. R., Lin, S.-c., Port, F., Wolfenberg, H., Mathejczyk, T. F., Linneweber, G. A., Chan, C.-c., Boutros, M. & Hiesinger, P. R.
eLife Sciences Publications, Ltd
Flow-Matching: Efficient Coarse-Graining of Molecular Dynamics without Forces.
Köhler, J., Chen, Y., Krämer, A., Clementi, C. & Noé, F.
Journal of chemical theory and computation 19, 942-952,
doi:10.1021/acs.jctc.3c00016
From Bench to Bedside and Back Again: Translating Circadian Science to Medicine.
Klerman, E. B., Kramer, A. & Zee, P. C.
Journal of biological rhythms 38, 125-130,
doi:10.1177/07487304221142743
IFITM3 blocks influenza virus entry by sorting lipids and stabilizing hemifusion.
Klein, S., Golani, G., Lolicato, F., Lahr, C., Beyer, D., Herrmann, A., Wachsmuth-Melm, M., Reddmann, N., Brecht, R., Hosseinzadeh, M., Kolovou, A., Makroczyova, J., Peterl, S., Schorb, M., Schwab, Y., Brügger, B., Nickel, W., Schwarz, U. S. & Chlanda, P.
Cell Host & Microbe 31, 616-633.e620,
doi:10.1016/j.chom.2023.03.005
A conditional Smg6 mutant mouse model reveals circadian clock regulation through the nonsense-mediated mRNA decay pathway.
Katsioudi, G., Dreos, R., Arpa, E. S., Gaspari, S., Liechti, A., Sato, M., Gabriel, C. H., Kramer, A., Brown, S. A. & Gatfield, D.
Science advances 9, eade2828,
doi:10.1126/sciadv.ade2828
Quantification of Dolichyl Phosphates Using Phosphate Methylation and Reverse-Phase Liquid Chromatography-High Resolution Mass Spectrometry.
Kale, D., Kikul, F., Phapale, P., Beedgen, L., Thiel, C. & Brügger, B.
Analytical chemistry 95, 3210-3217,
doi:10.1021/acs.analchem.2c03623
Unc13A dynamically stabilizes vesicle priming at synaptic release sites for short-term facilitation and homeostatic potentiation.
Jusyte, M., Blaum, N., Böhme, M. A., Berns, M. M. M., Bonard, A. E., Vámosi, Á. B., Pushpalatha, K. V., Kobbersmed, J. R. L. & Walter, A. M.
Cell reports 42, 112541,
doi:10.1016/j.celrep.2023.112541
Neural network-assisted single-molecule localization microscopy with a weak-affinity protein tag.
Jang, S., Narayanasamy, K. K., Rahm, J. V., Saguy, A., Kompa, J., Dietz, M. S., Johnsson, K., Shechtman, Y. & Heilemann, M.
Biophysical reports 3, 100123,
doi:10.1016/j.bpr.2023.100123
A general method for the development of multicolor biosensors with large dynamic ranges.
Hellweg, L., Edenhofer, A., Barck, L., Huppertz, M.-C., Frei, M. S., Tarnawski, M., Bergner, A., Koch, B., Johnsson, K. & Hiblot, J.
Nature Chemical Biology 19, 1147-1157,
doi:10.1038/s41589-023-01350-1
Absence of mitochondrial SLC25A51 enhances PARP1-dependent DNA repair by increasing nuclear NAD+ levels.
Güldenpfennig, A., Hopp, A.-K., Muskalla, L., Manetsch, P., Raith, F., Hellweg, L., Dördelmann, C., Leslie Pedrioli, D. M., Johnsson, K., Superti-Furga, G. & Hottiger, M. O.
Nucleic acids research 51, 9248-9265,
doi:10.1093/nar/gkad659
Sphingolipid subtypes differentially control proinsulin processing and systemic glucose homeostasis.
Griess, K., Rieck, M., Müller, N., Karsai, G., Hartwig, S., Pelligra, A., Hardt, R., Schlegel, C., Kuboth, J., Uhlemeyer, C., Trenkamp, S., Jeruschke, K., Weiss, J., Peifer-Weiss, L., Xu, W., Cames, S., Yi, X., Cnop, M., Beller, M., Stark, H., Kondadi, A. K., Reichert, A. S., Markgraf, D., Wammers, M., Häussinger, D., Kuss, O., Lehr, S., Eizirik, D., Lickert, H., Lammert, E., Roden, M., Winter, D., Al-Hasani, H., Höglinger, D., Hornemann, T., Brüning, J. C. & Belgardt, B.-F.
Nature cell biology 25, 20-29,
doi:10.1038/s41556-022-01027-2
Spontaneous neurotransmission at evocable synapses predicts their responsiveness to action potentials.
Grasskamp, A. T., Jusyte, M., McCarthy, A. W., Götz, T. W. B., Ditlevsen, S. & Walter, A. M.
Frontiers in cellular neuroscience 17, 1129417,
doi:10.3389/fncel.2023.1129417
Interactive nanocluster compaction of the ELKS scaffold and Cacophony Ca2+ channels drives sustained active zone potentiation.
Ghelani, T., Escher, M., Thomas, U., Esch, K., Lützkendorf, J., Depner, H., Maglione, M., Parutto, P., Gratz, S., Matkovic-Rachid, T., Ryglewski, S., Walter, A. M., Holcman, D., O'Connor Giles, K., Heine, M. & Sigrist, S. J.
Science advances 9, eade7804,
doi:10.1126/sciadv.ade7804
Branch point strength controls species-specific CAMK2B alternative splicing and regulates LTP.
Franz, A., Weber, A. I., Preußner, M., Dimos, N., Stumpf, A., Ji, Y., Moreno-Velasquez, L., Voigt, A., Schulz, F., Neumann, A., Kuropka, B., Kühn, R., Urlaub, H., Schmitz, D., Wahl, M. C. & Heyd,F.
Life science alliance 6,
doi:10.26508/lsa.202201826
Nutrient-regulated control of lysosome function by signaling lipid conversion.
Ebner, M., Puchkov, D., López-Ortega, O., Muthukottiappan, P., Su, Y., Schmied, C., Zillmann, S., Nikonenko, I., Koddebusch, J., Dornan, G. L., Lucht, M. T., Koka, V., Jang, W., Koch, P. A., Wallroth, A., Lehmann, M., Brügger, B., Pende, M., Winter, D. & Haucke, V.
Cell 186, 5328-5346.e5326,
doi:10.1016/j.cell.2023.09.027
3D surface reconstruction of cellular cryo-soft X-ray microscopy tomograms using semisupervised deep learning.
Dyhr, M. C. A., Sadeghi, M., Moynova, R., Knappe, C., Kepsutlu Çakmak, B., Werner, S., Schneider, G., McNally, J., Noé, F. & Ewers, H.
Proceedings of the National Academy of Sciences of the United States of America 120, e2209938120,
doi:10.1073/pnas.2209938120
Antisense Transcription of the Neurospora Frequency Gene Is Rhythmically Regulated by CSP-1 Repressor but Dispensable for Clock Function.
Cemel, I. A., Diernfellner, A. C. R. & Brunner, M.
Journal of biological rhythms 38, 259-268,
doi:10.1177/07487304231153914
Synaptotagmin 1-triggered lipid signaling facilitates coupling of exo- and endocytosis.
Bolz, S., Kaempf, N., Puchkov, D., Krauss, M., Russo, G., Soykan, T., Schmied, C., Lehmann, M., Müller, R., Schultz, C., Perrais, D., Maritzen, T. & Haucke, V.
Neuron 111, 3765-3774.e3767,
doi:10.1016/j.neuron.2023.08.016
Hydropersulfides inhibit lipid peroxidation and ferroptosis by scavenging radicals.
Barayeu, U., Schilling, D., Eid, M., Da Xavier Silva, T. N., Schlicker, L., Mitreska, N., Zapp, C., Gräter, F., Miller, A. K., Kappl, R., Schulze, A., Friedmann Angeli, J. P. & Dick, T. P.
Nature Chemical Biology 19, 28-37,
doi:10.1038/s41589-022-01145-w
Two for One: Diffusion Models and Force Fields for Coarse-Grained Molecular Dynamics.
Arts, M., Garcia Satorras, V., Huang, C.-W., Zügner, D., Federici, M., Clementi, C., Noé, F., Pinsler, R. & van den Berg, R.
Journal of chemical theory and computation 19, 6151-6159,
doi:10.1021/acs.jctc.3c00702
Lysosome-targeted multifunctional lipid probes reveal the sterol transporter NPC1 as a sphingosine interactor.
Altuzar, J., Notbohm, J., Stein, F., Haberkant, P., Hempelmann, P., Heybrock, S., Worsch, J., Saftig, P. & Höglinger, D.
Proceedings of the National Academy of Sciences of the United States of America 120, e2213886120,
doi:10.1073/pnas.2213886120
An unconventional gatekeeper mutation sensitizes inositol hexakisphosphate kinases to an allosteric inhibitor.
Aguirre, T., Dornan, G. L., Hostachy, S., Neuenschwander, M., Seyffarth, C., Haucke, V., Schütz, A., Kries, J. P. & Fiedler, D.
eLife 12,
doi:10.7554/eLife.88982.3
MHC-II dynamics are maintained in HLA-DR allotypes to ensure catalyzed peptide exchange.
Abualrous, E. T., Stolzenberg, S., Sticht, J., Wieczorek, M., Roske, Y., Günther, M., Dähn, S., Boesen, B. B., Calvo, M. M., Biese, C., Kuppler, F., Medina-García, Á., Álvaro-Benito, M., Höfer, T., Noé, F. & Freund, C.
Nature Chemical Biology 19, 1196-1204,
doi:10.1038/s41589-023-01316-3
Precise measurement of nanoscopic septin ring structures with deep learning-assisted quantitative superresolution microscopy.
Zehtabian, A., Müller, P. M., Goisser, M., Obendorf, L., Jänisch, L., Hümpfer, N., Rentsch, J. & Ewers, H.
Molecular biology of the cell 33, ar76,
doi:10.1091/mbc.E22-02-0039
Recruitment of a splicing factor to the nuclear lamina for its inactivation.
Vester, K., Preußner, M., Holton, N., Feng, S., Schultz, C., Heyd, F. & Wahl, M. C.
Communications biology 5, 736,
doi:10.1038/s42003-022-03689-y
Syntaxin-1A modulates vesicle fusion in mammalian neurons via juxtamembrane domain dependent palmitoylation of its transmembrane domain.
Vardar, G., Salazar-Lázaro, A., Zobel, S., Trimbuch, T. & Rosenmund, C.
eLife 11,
doi:10.7554/eLife.78182
Glypican-1 drives unconventional secretion of fibroblast growth factor 2.
Sparn, C., Dimou, E., Meyer, A., Saleppico, R., Wegehingel, S., Gerstner, M., Klaus, S., Ewers, H. & Nickel, W.
eLife 11,
doi:10.7554/eLife.75545
Data-driven modelling captures dynamics of the circadian clock of Neurospora crassa.
Singh, A., Li, C., Diernfellner, A. C. R., Höfer, T. & Brunner, M.
PLoS computational biology 18, e1010331,
doi:10.1371/journal.pcbi.1010331
Commonly Used Alkylating Agents Limit Persulfide Detection by Converting Protein Persulfides into Thioethers.
Schilling, D., Barayeu, U., Steimbach, R. R., Talwar, D., Miller, A. K. & Dick, T. P.
Angewandte Chemie (International ed. in English) 61, e202203684,
doi:10.1002/anie.202203684
Antagonistic control of active surface integrins by myotubularin and phosphatidylinositol 3-kinase C2β in a myotubular myopathy model.
Samsó, P., Koch, P. A., Posor, Y., Lo, W.-T., Belabed, H., Nazare, M., Laporte, J. & Haucke, V.
Proceedings of the National Academy of Sciences of the United States of America 119, e2202236119,
doi:10.1073/pnas.2202236119
Structural and functional investigation of the human snRNP assembly factor AAR2 in complex with the RNase H-like domain of PRPF8.
Preussner, M., Santos, K. F., Alles, J., Heroven, C., Heyd, F., Wahl, M. C. & Weber, G.
Acta crystallographica. Section D, Structural biology 78, 1373-1383,
doi:10.1107/S2059798322009755
Local synthesis of the phosphatidylinositol-3,4-bisphosphate lipid drives focal adhesion turnover.
Posor, Y., Kampyli, C., Bilanges, B., Ganguli, S., Koch, P. A., Wallroth, A., Morelli, D., Jenkins, M., Alliouachene, S., Deltcheva, E., Baum, B., Haucke, V. & Vanhaesebroeck, B.
Developmental cell 57, 1694-1711.e1697,
doi:10.1016/j.devcel.2022.06.011
Tissue-Specific CRISPR-Cas9 Screening in Drosophila.
Port, F. & Boutros, M.
Methods in molecular biology (Clifton, N.J.) 2540, 157-176,
doi:10.1007/978-1-0716-2541-5_7
Control of immediate early gene expression by CPEB4-repressor complex-mediated mRNA degradation.
Poetz, F., Lebedeva, S., Schott, J., Lindner, D., Ohler, U. & Stoecklin, G.
Genome biology 23, 193,
doi:10.1186/s13059-022-02760-5
Venn diagram analysis overestimates the extent of circadian rhythm reprogramming.
Pelikan, A., Herzel, H., Kramer, A. & Ananthasubramaniam, B.
The FEBS journal 289, 6605-6621,
doi:10.1111/febs.16095
Quantum dynamics using path integral coarse-graining.
Musil, F., Zaporozhets, I., Noé, F., Clementi, C. & Kapil, V.
The Journal of Chemical Physics 157, 181102,
doi:10.1063/5.0120386
Casein kinase 1 and disordered clock proteins form functionally equivalent, phospho-based circadian modules in fungi and mammals.
Marzoll, D., Serrano, F. E., Shostak, A., Schunke, C., Diernfellner, A. C. R. & Brunner, M.
Proceedings of the National Academy of Sciences of the United States of America 119,
doi:10.1073/pnas.2118286119
Neurospora casein kinase 1a recruits the circadian clock protein FRQ via the C-terminal lobe of its kinase domain.
Marzoll, D., Serrano, F. E., Diernfellner, A. C. R. & Brunner, M.
FEBS letters 596, 1881-1891,
doi:10.1002/1873-3468.14435
Deep learning to decompose macromolecules into independent Markovian domains.
Mardt, A., Hempel, T., Clementi, C. & Noé, F.
Nature Communications 13, 7101,
doi:10.1038/s41467-022-34603-z
Monitoring Virus-Induced Stress Granule Dynamics Using Long-Term Live-Cell Imaging.
Magg, V., Klein, P. & Ruggieri, A.
Methods in molecular biology (Clifton, N.J.) 2428, 325-348,
doi:10.1007/978-1-0716-1975-9_20
Cholesterol promotes clustering of PI(4,5)P2 driving unconventional secretion of FGF2.
Lolicato, F., Saleppico, R., Griffo, A., Meyer, A., Scollo, F., Pokrandt, B., Müller, H.-M., Ewers, H., Hähl, H., Fleury, J.-B., Seemann, R., Hof, M., Brügger, B., Jacobs, K., Vattulainen, I. & Nickel, W.
The Journal of cell biology 221,
doi:10.1083/jcb.202106123
Endosomal phosphatidylinositol 3-phosphate controls synaptic vesicle cycling and neurotransmission.
Liu, G.-T., Kochlamazashvili, G., Puchkov, D., Müller, R., Schultz, C., Mackintosh, A. I., Vollweiter, D., Haucke, V. & Soykan, T.
The EMBO Journal 41, e109352,
doi:10.15252/embj.2021109352
Phosphoinositide Conversion Inactivates R-RAS and Drives Metastases in Breast Cancer.
Li, H., Prever, L., Hsu, M. Y., Lo, W.-T., Margaria, J. P., Santis, M. C., Zanini, C., Forni, M., Novelli, F., Pece, S., Di Fiore, P. P., Porporato, P. E., Martini, M., Belabed, H., Nazare, M., Haucke, V., Gulluni, F. & Hirsch, E.
Advanced science (Weinheim, Baden-Wurttemberg, Germany) 9, e2103249,
doi:10.1002/advs.202103249
Allosteric stabilization of calcium and phosphoinositide dual binding engages several synaptotagmins in fast exocytosis.
Kobbersmed, J. R. L., Berns, M. M. M., Ditlevsen, S., Sørensen, J. B. & Walter, A. M.
eLife 11,
doi:10.7554/eLife.74810
Temporal control of the integrated stress response by a stochastic molecular switch.
Klein, P., Kallenberger, S. M., Roth, H., Roth, K., Ly-Hartig, T. B. N., Magg, V., Aleš, J., Talemi, S. R., Qiang, Y., Wolf, S., Oleksiuk, O., Kurilov, R., Di Ventura, B., Bartenschlager, R., Eils, R., Rohr, K., Hamprecht, F. A., Höfer, T., Fackler, O. T., Stoecklin, G. & Ruggieri, A.
Science advances 8, eabk2022,
doi:10.1126/sciadv.abk2022
Endosomal lipid signaling reshapes the endoplasmic reticulum to control mitochondrial function.
Jang, W., Puchkov, D., Samsó, P., Liang, Y., Nadler-Holly, M., Sigrist, S. J., Kintscher, U., Liu, F., Mamchaoui, K., Mouly, V. & Haucke, V.
Science (New York, N.Y.) 378, eabq5209,
doi:10.1126/science.abq5209
Deeptime: a Python library for machine learning dynamical models from time series data.
Hoffmann, M., Scherer, M., Hempel, T., Mardt, A., Silva, B., Husic, B. E., Klus, S., Wu, H., Kutz, N., Brunton, S. L. & Noé, F.
Machine Learning: Science and Technology 3, 015009,
doi:10.1088/2632-2153/ac3de0
Image-Based Screening for Stress Granule Regulators.
Hoerth, K., Eiermann, N., Beneke, J., Erfle, H. & Stoecklin, G.
Methods in molecular biology (Clifton, N.J.) 2428, 361-379,
doi:10.1007/978-1-0716-1975-9_22
Preferential translation of p53 target genes.
Hisaoka, M., Schott, J., Bortecen, T., Lindner, D., Krijgsveld, J. & Stoecklin, G.
RNA biology 19, 437-452,
doi:10.1080/15476286.2022.2048562
Defective lipid signalling caused by mutations in PIK3C2B underlies focal epilepsy.
Gozzelino, L., Kochlamazashvili, G., Baldassari, S., Mackintosh, A. I., Licchetta, L., Iovino, E., Liu, Y. C., Bennett, C. A., Bennett, M. F., Damiano, J. A., Zsurka, G., Marconi, C., Giangregorio, T., Magini, P., Kuijpers, M., Maritzen, T., Norata, G. D., Baulac, S., Canafoglia, L., Seri, M., Tinuper, P., Scheffer, I. E., Bahlo, M., Berkovic, S. F., Hildebrand, M. S., Kunz, W. S., Giordano, L., Bisulli, F., Martini, M., Haucke, V., Hirsch, E. & Pippucci, T.
Brain : a journal of neurology 145, 2313-2331,
doi:10.1093/brain/awac082
Synergizing Exchangeable Fluorophore Labels for Multitarget STED Microscopy.
Glogger, M., Wang, D., Kompa, J., Balakrishnan, A., Hiblot, J., Barth, H.-D., Johnsson, K. & Heilemann, M.
ACS nano 16, 17991-17997,
doi:10.1021/acsnano.2c07212
Engineered HaloTag variants for fluorescence lifetime multiplexing.
Frei, M. S., Tarnawski, M., Roberti, M. J., Koch, B., Hiblot, J. & Johnsson, K.
Nature methods 19, 65-70,
doi:10.1038/s41592-021-01341-x
Live-Cell Fluorescence Lifetime Multiplexing Using Synthetic Fluorescent Probes.
Frei, M. S., Koch, B., Hiblot, J. & Johnsson, K.
ACS chemical biology 17, 1321-1327,
doi:10.1021/acschembio.2c00041
Mitochondrial Inhibition by Sodium Azide Induces Assembly of eIF2α Phosphorylation-Independent Stress Granules in Mammalian Cells.
Eiermann, N., Stoecklin, G. & Jovanovic, B.
International journal of molecular sciences 23,
doi:10.3390/ijms23105600
Inter-layer and inter-subject variability of diurnal gene expression in human skin.
Del Olmo, M., Spörl, F., Korge, S., Jürchott, K., Felten, M., Grudziecki, A., Zeeuw, J., Nowozin, C., Reuter, H., Blatt, T., Herzel, H., Kunz, D., Kramer, A. & Ananthasubramaniam, B.
NAR Genomics and Bioinformatics 4, lqac097,
doi:10.1093/nargab/lqac097
Sortase-Mediated Multi-Fragment Assemblies by Ligation Site Switching.
Bierlmeier, J., Álvaro-Benito, M., Scheffler, M., Sturm, K., Rehkopf, L., Freund, C. & Schwarzer, D.
Angewandte Chemie (International ed. in English) 61, e202109032,
doi:10.1002/anie.202109032
A multi-factor trafficking site on the spliceosome remodeling enzyme BRR2 recruits C9ORF78 to regulate alternative splicing.
Bergfort, A., Preußner, M., Kuropka, B., Ilik, İ. A., Hilal, T., Weber, G., Freund, C., Aktaş, T., Heyd, F. & Wahl, M. C.
Nature Communications 13, 1132,
doi:10.1038/s41467-022-28754-2
The intrinsically disordered TSSC4 protein acts as a helicase inhibitor, placeholder and multi-interaction coordinator during snRNP assembly and recycling.
Bergfort, A., Hilal, T., Kuropka, B., Ilik, İ. A., Weber, G., Aktaş, T., Freund, C. & Wahl, M. C.
Nucleic acids research 50, 2938-2958,
doi:10.1093/nar/gkac087
Circadian rhythms in septic shock patients.
Gunnar Lachmann, Bharath Ananthasubramaniam, Viktor A Wünsch, Lara-Marie Scherfig, Clarissa von Haefen, Cornelia Knaak, Andreas Edel, Lukas Ehlen, Barbara Koller, Anton Goldmann, Hanspeter Herzel, Achim Kramer, Claudia Spies.
Ann Intensive Care 2021 Apr 26;11(1):64
DOI: https://doi.org/10.1186/s13613-021-00833-5.
Nascent Ribo-Seq measures ribosomal loading time and reveals kinetic impact on ribosome density.
Schott J, Reitter S, Lindner D, Grosser J, Bruer M, Shenoy A, Geiger T, Mathes A, Dobreva G, Stoecklin G.
Nat Methods. 2021 Sep 3.
DOI: 10.1038/s41592-021-01250-z
Synthesis and cellular labeling of multifunctional phosphatidylinositol bis- and trisphosphate derivatives
Mueller, R., Kojic, A., Citir, M., Schultz, C. (2021).
Angew Chem Int Ed Engl 60(36):19759-19765,
DOI: 10.1002/anie.202103599
Stearic acid blunts growth-factor signaling via oleoylation of GNAI proteins.
Nůsková H, Serebryakova MV, Ferrer-Caelles A, Sachsenheimer T, Lüchtenborg C, Miller AK, Brügger B, Kordyukova LV, Teleman AA.
Nat Commun. 2021 Jul 28;12(1):4590.
DOI: 10.1038/s41467-021-24844-9 PMID: 34321466
Inositol triphosphate-triggered calcium release blocks lipid exchange at endoplasmic reticulum-Golgi contact sites.
Malek M, Wawrzyniak AM, Koch P, Lüchtenborg C, Hessenberger M, Sachsenheimer T, Jang W, Brügger B, Haucke V
Nat Commun. 2021 May 11;12(1):2673.
DOI: 10.1038/s41467-021-22882-x.PMID: 33976123
Caged lipids for subcellular manipulation
Farley, S., Laguerre, A., Schultz, C.
Curr. Op. Chem. Biol. 65, 42-48.
DOI: 10.1016/j.cbpa.2021.04.012
Transient deSUMOylation of IRF2BP proteins controls early transcription in EGFR signaling
Sina V Barysch,†, Nicolas Stankovic-Valentin,†, Tim Miedema, Samir Karaca, Judith Doppel, Thiziri Nait Achour, Aarushi Vasudeva, Lucie Wolf, Carsten Sticht, Henning Urlaub & Frauke Melchior*(2021).
EMBO Rep (2021)e49651.
DOI: 10.15252/embr.201949651.
*Corresponding author. † These authors contributed equally to this work
Role of Clathrin Light Chains in Regulating Invadopodia Formation
Mukenhirn, M., Muraca, F., Bucher, D., Asberger, E., Cappio Barazzone, E., Cavalcanti-Adam, E.A., Boulant, S. (2021).
Cells. 2021; 10(2):451.
DOI: https://doi.org/10.3390/cells10020451.
Independent Markov Decomposition: Towards modeling kinetics of biomolecular complexes
Hempel, T., del Razo, M. J., Lee, C. T., Taylor, B. C., Amaro, R. E., Noé, F. (2021).
Proceedings of the National Academy of Sciences of the United States of America 118.
DOI: 10.1073/pnas.2105230118 (2021).
Molecular mechanism of inhibiting the SARS-CoV-2 cell entry facilitator TMPRSS2 with camostat and nafamostat
Hempel, T., Raich, L., Olsson, S., Azouz, N.P., Klingler, A.M., Hoffmann, M., Pöhlmann, S., Rothenberg, M. E., Noé, F. (2021).
Chemical Science 12 (3), 983-992 6 2021.
DOI: 10.1039/D0SC05064D.
Camostat mesylate inhibits SARS-CoV-2 activation by TMPRSS2-related proteases and its metabolite GBPA exerts antiviral activity
Hoffmann, M., Hofmann-Winkler, H., Smith, J.C., Krüger, N., Arora, P., Sørensen, L.K., Søgaard, O.S., Hasselstrøm, J.B., Winkler, M., Hempel, T., Raich, L., Olsson. S., Danov, O., Jonigk, D., Yamazoe, T., Yamatsuta, K., Mizuno, H., Ludwig, S., Noé, F., Kjolby, M., Braun, A., Sheltzer, J.M., Pöhlmann, S. (2021).
EBioMedicine, 103255 15 2021.
DOI: 10.1016/j.ebiom.2021.103255.
The molecular mechanisms mediating class II PI 3-kinase function in cell physiology
Koch, P.A., Dornan, G.L., Hessenberger, M., Haucke, V. (2021).
FEBS J. 288(24):7025-7042.
DOI: 10.1111/febs.15692
Left-handed DNA-PAINT for improved super-resolution imaging in the nucleus
Geertsema, H. J., Aimola, G., Fabricius, V., Fuerste, J.P., Kaufer, B.B., Ewers, H. (2021).
Nature Biotechnology 39 (5), 551-554.
DOI: 10.1038/s41587-020-00753-y
Directed manipulation of membrane proteins by fluorescent magnetic nanoparticles
Li, J.H., Santos-Otte, P., Au, B., Rentsch, J., Block, S., Ewers, H. (2021).
Nature communications 11 (1), 4259.
DOI: 10.1038/s41467-020-18087-3.
The Sumo proteome of proliferating and neuronal-differentiating cells reveals Utf1 among key Sumo targets involved in neurogenesis
Correa-Vázquez, J.F., Juárez-Vicente, F., García-Gutiérrez, P., Barysch, S.V., Melchior, F., García-Domínguez, M. (2021).
Cell Death Dis. 2021 Mar 22;12(4):305. PMID: 33753728; PMCID: PMC7985304.
DOI: 10.1038/s41419-021-03590-2.
Protein phosphatase 4 controls circadian clock dynamics by modulating CLOCK/BMAL1 activity
Klemz, S., Wallach, T., Korge, S., Rosing, M., Klemz, R., Maier, B., C. Fiorenza, N. C., Kaymak, I., Fritzsche, A. K., Herzog, E. D., Stanewsky, R., Kramer, A.
Genes & Development 35, 1161-1174
DOI: 10.1101/gad.348622.121.
Live-cell imaging of circadian clock protein dynamics in CRISPR-generated knock-in cells
Gabriel, C. H., del Olmo, M., Zehtabian, A., Jäger, M., Reischl, S., van Dijk, H., Ulbricht, C., Rakhymzhan, A., Korte, T., Koller, B., Grudziecki, A., Maier, B., Herrmann, A., Niesner, R., Zemojtel, T., Ewers, H.,, Granada, A. E., Herzel, H.-P., Kramer, A. (2021).
Nature Communications 12, 3796.
DOI: 10.1038/s41467-021-24086-9
Intercellular coupling between peripheral circadian oscillators by TGF-β signaling
Finger, A.-M., Jäschke, S., del Olmo, M., Hurwitz, R., Granada, A. E., Herzel, H.-P., Kramer, A. (2021).
Science Advances 7.
DOI: 10.1126/sciadv.abg5174.
Peripheral clocks tick independently of their master
Anna-Marie Finger and Achim Kramer (2021).
Genes & Development 35, 304-306.
DOI: https://doi.org/10.1101/gad.348305.121.
Mammalian circadian systems: Organization and modern life challenges
Anna-Marie Finger and Achim Kramer (2021).
Acta Physiol (Oxf) 231(3):e13548.
DOI: https://doi.org/10.1111/apha.13548.
Principles underlying the complex dynamics of temperature entrainment by a circadian clock.
Burt, P., Grabe, S., Madeti, C., Upadhyay, A., Merrow, M., Roenneberg, T., Herzel, H., Schmal, C. (2021).
iScience 24(11).
DOI: 10.1016/j.isci.2021.103370
Srsf10 and the minor spliceosome control tissue-specific and dynamic SR protein expression.
Meinke, S., Goldammer, G., Weber, A.I., Tarabykin, V., Neumann, A., Preussner, M., Heyd, F. (2020).
Elife. 2020 Apr 27;9. pii: e56075,
DOI: 10.7554/eLife.56075.
Amplitude effects allow short jet lags and large seasonal phase shifts in minimal clock models.
Ananthasubramaniam, B., Schmal, C., and Herzel, H. (2020).
J. Mol. Biol. 2020 May 29; ´432(12):3722-3737,
DOI: 10.1016/j.jmb.2020.01.014
A conserved kinase-based body-temperature sensor globally controls alternative splicing and gene expression.
Haltenhof, T., Kotte, A., De Bortoli, F., Schiefer, S., Meinke, S., Emmerichs, A.K., Petermann, K.K., Timmermann, B., Imhof, P., Franz, A., Loll, B., Wahl, M.C., Preußner, M., and Heyd, F. (2020).
Mol. Cell, 2020 Apr 2;78(1):57-69.e4,
DOI: 10.1016/j.molcel.2020.01.028.
CDK1 couples proliferation with protein synthesis.
Haneke, K., Schott, J., Lindner, D., Hollensen, A., Damgaard, C., Mongis, C., Knop, M., Palm, W., Ruggieri, A., Stoecklin, G. (2020).
The Journal of cell biology 219,
DOI: 10-1083/jcb.201906147.
Autophagy-dependent filopodial kinetics restrict synaptic partner choice during Drosophila brain wiring.
Kiral, F.R., Linneweber, G.A., Mathejczyk, T.F., Georgiev, S.V., Wernet, M.F., Hassan, B.A., von Kleist, M., Hiesinger, P.R. (2020).
Nat Commun, 2020 Mar 12;11(1):1325,
DOI: 10.1038/s41467-020-14781-4
Rapid regulation of vesicle priming explains synaptic facilitation despite heterogenous vesicle:Ca2+ channel distances.
Kobbersmed, J.R.L., Grasskamp, A.T., Jusyte, M., Böhme, M.A., Ditlevsen, S., Sörensen, J.B., Walter, A.M. (2020).
eLife, 2020 Feb 20:9:e51032,
DOI: 10.7554/eLife.51032
Heme binding of transmembrane signaling proteins undergoing regulated intramembrane proteolysis.
Kupke, T., Klare, J.P., Brügger, B. (2020).
Commun Biol 3, 73,
DOI: 10.1083/s42003-020-0800-0.
The α1 subunit of the Na,K-ATPase acts upstream of PI(4,5)P2 facilitating unconventional secretion of Fibroblast Growth Factor 2 from tumor cells.
Legrand, C., Saleppico, R., Sticht, J., Lolicato, F., Müller, H.M., Wegehingel, S., Dimou, E., Steringer, J.P., Ewers, H., Vattulainen, I., Freund, C., Nickel, W. (2020).
Commun Biol, 2020 Mar 25:3(1):141,
DOI: 10.1038/s42003-020-0871-y
A large-scale resource for tissue-specific CRISPR mutagenesis in Drosophila.
Port, F., Strein, C., Stricker, M., Rauscher, B., Heigwer, F., Zhou, J., Beyersdörffer, C., Frei, J., Hess, A., Kern, K., Lange, L., Langner, N., Malamud, R., Pavlovic, B., Rädecke, K., Schmitt, L., Voos, L., Valentini, E., Boutros, M. (2020).
eLife, 2020 Feb 13:9:e53865,
DOI: 10.7554/eLife.53865
The inactive C-terminal cassette oft he dual-cassette RNA helicase BRR“ both stimulates and inhibits the activity oft he N-terminal helicase unit.
Vester, K., Santos, K.F., Kuropka, B., Weise, C., Wahl, M.C. (2020).
J Biol Chem 295:2097-2112,
DOI: 10.1074/jbc.RA119.010964
Deep learning Markov and Koopman models with physical constraints
Mardt, A., Pasquali, L., Noé, F., & Wu, H. (2020, August).
In Mathematical and Scientific Machine Learning (pp. 451-475). PMLR,
arXiv:1912.07392 [physics.comp-ph], DOI: 10.48550/arXiv 1912.07392
Coupling of conformational switches in calcium sensor unraveled with local Markov models and transfer entropy
Hempel, T., Plattner, N., Noé, F. (2020).
Journal of Chemical Theory and Computation 16 (4), 2584-2593,
DOI: 10.1021/acs.jctc.0c00043.
The INPP4B Tumor Suppressor Modulates EGFR Trafficking and Promotes Triple Negative Breast Cancer
Liu, H., Paddock, M.N. Wang, H., Murphy, C.J., Geck, R.C., Navarro, A.J., Wulf, G.M., Elemento, O., Haucke, V., Cantley, L.C., Toker, A. (2020).
Cancer Discov. 10, 1226-1239,
DOI: 10.1158/2159-8290.
Heritable gene expression variability and stochasticity govern clonal heterogeneity in circadian period
Nikhil, K. L., Sandra Korge. S., Kramer, A. (2020).
PLoS Biol. 18:e3000792.
DOI: 10.1371/journal.pbio.3000792
Coupled network of the circadian clocks: a driving force of rhythmic physiology
Finger, A.-M., Dibner, C., Kramer, A. (2020).
FEBS Lett. 594, 2734-2769.
DOI: 10.1002/1873-3468.13898.
Multiple random phosphorylations in clock proteins provide long delays and switches.
Upadhyay, A., Marzoll, D., Diernfellner, A., Brunner, M., Herzel, H. (2020).
Sci. Rep. 10, 22224
DOI: 10.1038/s41598-020-79277-z.
Complexin Suppresses Spontaneous Exocytosis by Capturing the Membrane-Proximal Regions of VAMP2 and SNAP25.
Malsam, J., Bärfuss, S., Trimbuch, T., Zarebidaki, F., Sonnen, A. F. P., Wild, K., Scheutzow, A., Rohland, L., Mayer, M. P., Sinning, I., Briggs, J. A. G., Rosenmund, C. & Söllner, T. H.
Cell reports 32, 107926,
DOI: 10.1016/j.celrep.2020.107926
Unblending of Transcriptional Condensates in Human Repeat Expansion Disease.
Basu, S., Mackowiak, S. D., Niskanen, H., Knezevic, D., Asimi, V., Grosswendt, S., Geertsema, H., Ali, S., Jerković, I., Ewers, H., Mundlos, S., Meissner, A., Ibrahim, D. M. & Hnisz, D.
Cell 181, 1062-1079.e1030,
DOI: 10.1016/j.cell.2020.04.018
Molecular mechanism underlying inhibition of intrinsic ATPase activity in a Ski2-like RNA helicase.
Absmeier, E., Santos, K. F., Wahl, M. C. (2019).
Structure 28:236-243,
DOI: 10.1016/j.str.2019.11.014
The ubiquitin-like modifier FAT10 interferes with SUMO activation.
Aichem, A., Sailer, C., Ryu, S., Catone, N., Stankovic-Valentin, N., Schmidtke, G., Melchior, F., Stengel, F. and Groettrup, M. (2019).
Nat Commun. 10, 4452,
DOI: 10.1038/s41467-019-12430-z
A genome-edited Sept2-GFP cell line.
Banko, M., Mucha-Kruczynska, I., Weise, C., Heyd, F. and Ewers, H. (2019).
Cytoskeleton 76 (1), 73-82,
DOI: 10.1002/cm.21518
Onset of differentiation is posttranscriptionally controlled in adult neural stem cells.
Baser, A., Skabkin, M., Kleber, S., Dang, Y., Gülcüler Balta, G. S., Kalamakis, G., Göpferich, M., Carvajal Ibañez, D., Schefzik, R., Santos Lopez, A., Llorens Bobadilla, E., Schultz, C., Fischer, B., Martin-Villalba, A. (2019).
Nature 566:100-104,
DOI: 10.1038/s41586-019-0888-x
Rapid active zone remodeling consolidates presynaptic potentiation.
Böhme, M. A., McCarthy, A. W., Grasskamp, A. T., Beuschel, C. B., Goel, P., Jusyte, M., Laber, D., Huang, S., Rey, U., Petzold, A., Lehmann, M., Göttfert, F., Haghighi, P., Hell, S. W., Owald, D., Dickman, D., Sigrist, S. J., and Walter, A. M#. (2019).
Nat. Commun. 10, 1085; (#: correspondence),
DOI; 10.1038/s41467-019-08977-6
Generation of Human CRY1 and CRY2 Knockout Cells Using Duplex CRISPR/Cas9 Technology.
Börding, T., Abdo, A. N., Maier, B., Gabriel, C., Kramer, A. (2019).
Front Physiol. 10:577,
DOI: 10.3389/fphys.2019.00577
Differential interleukin-2 transcription kinetics render mouse but not human T cells vulnerable to splicing inhibition early after activation.
Bose, D., Neumann, A., Timmermann, B., Meinke, S., Heyd, F. (2019).
Mol Cell Biol 39:e00035-19,
DOI: 10.1128/MCB.00035-19
The axonal membrane protein PRG2 inhibits PTEN and directs growth to branches.
Brosig, A.#, Fuchs, J.#, Ipek, F., Schrötter, S., Vadhvani, M., Szczepek, M., van Diepen, M., Holzhütter, T., Trimbuch, T., Gimber, N., Schmoranzer, J., Lieberam, I., Rosenmund, C., Spahn, C., Scheerer, P., Leondaritis, G. and Eickholt, B. (2019).
Cell Rep 29(7):2028-2040; (#: correspondence),
DOI: 10.1016/j.celrep.2019.10.039
Hypoxia-induced changes in SUMO conjugation affect transcriptional regulation under low oxygen.
Chachami, G., Stankovic-Valentin, N., Karagiota, A., Basagianni, A., Plessmann, U., Urlaub, H., Melchior, F. and Simos, G. (2019).
Mol Cell Proteomics 18,1197-1209,
DOI: 10.1074/mcp.RA119.001401
Increased versatility despite reduced molecular complexity: evolution, structure and function of metazoan splic- ing factor PRPF39.
De Bortoli, F., Neumann, A., Kotte, A., Timmermann, B., Schuler, T., Wahl, M. C., Loll, B., Heyd, F. (2019).
Nucleic Acids Res 47:5867-5879,
DOI: 10.1093/nar/gkz243
Loss of Neurological Disease HSAN-I-Associated Gene SPTLC2 Impairs CD8+ T Cell Responses to Infection by Inhibiting T Cell Metabolic Fitness.
Wu, J., Ma, S., Sandhoff, R., Ming, Y., Hotz-Wagenblatt, A., Timmerman, V., Bonello-Palot, N., Schlotter-Weigel, B., Auer-Grumbach, M., Seeman, P., Löscher, W.N., Reindl, M., Weiss, F., Mah, E., Weisshaar, N., Madi, A., Mohr, K., Schlimbach, T., Velasco Cárdenas, R.M., Koeppel, J., Grünschläger, F., Müller, L., Baumeister, M., Brügger, B., Schmitt, M., Wabnitz, G., Samstag, Y., Cui, G. (2019).
Immunity S1074- 7613(19)30095-0,
DOI: 10.1016/j.immuni.2019.03.005
Differential IL2 transcription kinetics render mouse but not human T cells vulnerable to splicing inhibition early after activation.
Bose, D., Neumann, A., Timmermann, B., Meinke, S., Heyd, F. (2019).
Mol Cell Biol. 2019 Jun 3. pii: MCB.00035-19,
DOI: 10.1128/MCB.00035-19.
A Robust Model for Circadian Redox Oscillations.
del Olmo, M., Kramer, A., Herzel, H. (2019).
Int. J. Mol. Sci. 2019, 20(9), 2368,
DOI: 10.3390/ijms2009236.
Single event visualization of unconventional secretion of FGF2.
Dimou, E., Cosentino, K., Platonova, E., Ros, U., Sadeghi, M., Kashyap, P., Katsinelos, T., Wegehingel, S., Noé, F., García-Sáez ,A. J., Ewers, H., Nickel, W. (2018).
J Cell Biol. 2019 Feb 4;218(2):683-699. Epub 2018 Nov 23.
DOI: 10.1083/jcb.201802008.
An Inactivation Switch Enables Rhythms in a Neurospora Clock Model.
Upadhyay, A., Brunner, M., Herzel, H. (2019).
Int. J. Mol. Sci., 20(12), 2985.
DOI: 10.3390/ijms20122985.
A missing switch in peptide exchange for MHC class II molecules.
Freund, C. & Höfer, T. (2019).
Front. Immunol.
DOI: 10.3389/fimmu.2019.02513.
3D cellular architecture modulates tyrosine kinase activ- ity thereby switching CD95 mediated apoptosis to survival.
Gülcüler Balta, G. S., Monzel, C., Kleber, S., Beaudouin, J., Balta, E., Kaindl, T., Chen, S., Gao, L., Thiemann, M., Wirtz, C. R., Samstag, Y., Tanaka, M., Martin-Villalba, A. (2019).
Cell Rep 29(8):2295-2306,
DOI:10.1016/j.celrep.2019.10.054
Photolysis of cell-permeant caged inositol pyrophosphates controls oscillations of cytosolic calcium in a β-cell line.
Hauke, S., Dutta, A. K., Eisenbeis, V. B., Bezold, D., Bittner, T., Wittwer, C., Thakor, D., Pavlovic, I., Schultz, C., Jessen, H. J. (2019).
Chem. Sci. 10:2687-2692.
DOI: 10.1039%2Fc8sc03479f
NPC1 regulates ER contacts with endocytic organelles to mediate cholesterol egress.
Höglinger, D., Burgoyne, T., Sanchez-Heras, E., Hartwig, P., Colaco, A., Newton, J., Futter, C., Spiegel, S., Platt, F., Eden, E. (2019).
Nat Commun, 10(1):4276-4289,
DOI: 10.1038/s41467-019-12152-2
Bi- and Trifunctional Lipids for Visualization of Sphingolipid Dynamics within the Cell.
Höglinger, D. (2019).
Methods Mol Biol, 1949:95-103,
DOI: 10.1007/978-1-4939-9136-5_8
Illuminating G-Protein-Coupling Selectivity of GPCRs.
Inoue, A., Raimondi, F., Kadji, F. M. N., Singh, G., Kishi, T., Uwamizu, A., Ono, Y., Shinjo, Y., Ishida, S., Arang, N., Kawakami, K., Gutkind, J. S., Aoki, J., Russell, R. B. (2019).
Methods Mol Biol, 1949:95-103,
DOI: 10.1016/j.cell.2019.04.044
Onset of differentiation is posttranscriptionally controlled in adult neural stem cells.
Baser, A., Skabkin, M., Kleber, S., Dang, Y., Gülcüler Balta, G. S., Kalamakis, G., Göpferich, M., Ibañez, D. C., Schefzik, R., Lopez, A. S., Bobadilla, E. L., Schultz, C., Fischer, B., Martin-Villalba, A. (2019).
Nature 566:100-104,
DOI: 10.1038/s41586-019-0888-x
Photo-release of 2-arachidonoylglycerol in live cells.
Laguerre, A., Hauke, S., Qiu, J., Kelly, M., Schultz, C. (2019).
J. Am. Chem. Soc. 141, 16544-16547,
DOI: 10.1021/jacs.9b05978
Nanoscale coupling of endocytic pit growth and stability.
Lehmann, M., Lukonin, I., Noé, F., Schmoranzer, J., Clementi, C., Loerke, D., Haucke, V. (2019).
Sci Adv. 2019 Nov 27;5(11):eaax5775. eCollection 2019 Nov.
DOI: 10.1074/jbc.RA119.011774.
Quantification of phosphoinositides reveals strong enrichment of PIP2 in HIV-1 compared to producer cell membranes.
Müksch, F., Cetir, M., Lüchtenborg, C., Glass, B., Traynor-Kaplan, A., Schultz, C., Brügger, B., Kräusslich, H. G. (2019).
Sci Reports, 9(1):17661.
DOI: 10.1038/s41598-019-53939-z.
Synthesis and cellular labeling of caged phosphatidylinositol derivatives.
Müller, R., Citir, M., Hauke, S., Schultz, C. (2019).
Chemistry.
DOI: 10.1002/chem.201903704.
Hypoxic environment promotes barrier formation in human intestinal epithelial cells through regulation of miRNA-320a expression.
Muenchau, S., Deutsch, R., de Castro, I. J., Hielscher, T., Heber, N., Niesler, B., Lusic, M., Stanifer, M. L., Boulant S. (2019).
Mol Cell Biol. 39(14). pii: e00553-18,
DOI: 10.1128/mcb.00553-18
Dynamic graphical models of molecular kinetics.
Olsson, S., Noé F. (2019).
Proc. Natl. Acad. Sci. USA. 116(30): 15001-15006,
DOI: 10.1073/pnas.1901692116
Serial synapse formation through filopodial competition for synaptic seeding factors.
Ozel, M. N., Kulkarni, A., Hasan, A., Brummer, J., Moldenhauer, M., Daumann, I. M., Wolfenberg, H., Dercksen, V. J., Kiral, F. R., Weiser, M., Prohaska, S., von Kleist, M., Hiesinger, P. R. (2019).
Dev Cell, 50(4):447-461,
DOI: 10.1016/j.devcel.2019.06.014
Gating modules of the AMPA receptor pore domain revealed by unnatural amino acid mutagenesis.
Poulsen, M. H., Poshtiban, A., Klippenstein, V., Ghisi. V, and Plested, A. J. R. (2019).
Proc Natl Acad Sci USA 116(27):13358-13367,
DOI: 10.1073/pnas.1818845116
Membrane bridging by Munc13-1 is crucial for neurotransmitter release.
Quade, B., Camacho, M., Zhao, X., Orlando, M., Trimbuch, T., Xu, J., Li, W., Nicastro, D., Rosenmund, C., and Rizo, J. (2019).
Elife 8, e42806,
DOI: 10.7554/eLife.42806
Cellular polarity asymmetrically functionalizes pathogen recognition receptor-mediated intrinsic immune response in human intestinal epithelium cells.
Stanifer, M., Mukenhirn, M,. Muenchau, S., Pervolaraki, K., Kanaya, T., Albrecht, D., Haucke, V., Odendall, C., Ka- gan, J. C., Bartfeld, S., Ohno, H., and Boulant, S. (2019).
Nature Microbiology.
DOI: 10.1101/450668
Protein kinase N controls a lysosomal lipid switch to facilitate nutrient signaling via mTORC1.
Wallroth, A., Koch, P. A., Marat, A. L., Krause, E., Haucke, V. (2019).
Nat Cell Biol 21: 1093-1101,
DOI: 10.1038/s41556-019-0377-3
Phosphatidylinositol 3,4-bisphosphate synthesis and turnover are spatially segregated in the endocytic pathway.
Wang, H., Loerke, D., Bruns, C., Müller, R., Koch, P. A., Puchkov, D., Schultz, C., Haucke, V. (2019).
J Biol Chem. 2019 Dec 12. pii: jbc.RA119.011774,
DOI: 10.1074/jbc.RA119.011774.
Mechanical signals regulate TORC2 activity.
Ebner, M., Haucke, V. (2018).
Nat. Cell Biol. 20: 994-995 (News and Views).
Quantitative analysis of circadian single cell oscillations in response to temperature
Abraham, U., Schlichting, J. K., Kramer, A., Herzel, H. (2018).
PLoS One. 2018 Jan 2;13(1):e0190004.
DOI: 10.1371/journal.pone.0190004.
Ultradian Rhythms in the Transcriptome of Neurospora crassa.
Ananthasubramaniam, B., Diernfellner, A., Brunner, M., Herzel, H. (2018).
iScience. 2018 Nov 30;9:475-486. Epub 2018 Nov 10.
DOI: 10.1016/j.isci.2018.11.012.
Regulation of synaptic release-site-Ca2+-channel coupling as a mechanism to control release probability and short-term plasticity
Bohme, M. A., Grasskamp, A. T., and Walter, A. M. (2018).
FEBS Lett. 2018 Nov;592(21):3516-3531. Epub 2018 Jul 31.
DOI: 10.1002/1873-3468.13188.
Synaptotagmin-1 drives synchronous Ca2+-triggered fusion by C2B-domain-mediated synaptic-vesicle-membrane attachment.
Chang, S., Trimbuch, T., Rosenmund, C. (2018).
Nat Neurosci. 2018 Jan;21(1):33-40. Epub 2017 Dec 11.
DOI: 10.1038/s41593-017-0037-5.
Unconventional mechanisms of eukaryotic protein secretion.
Dimou, E., Nickel, W. (2018).
Curr Biol. 2018 Apr 23;28(8):R406-R410.
DOI: 10.1016/j.cub.2017.11.074.
Open-source recombinant monoclonal secondary nanobodies.
Ewers, H. (2018).
J Cell Biol. 2018 Mar 5;217(3):809-811. Epub 2018 Feb 14.
DOI: 10.1083/jcb.201802025.
Optical tools for understanding the complexity of beta cell signaling and insulin release.
Frank, J., Broichhagen, J., Yushchenko, D., Trauner, D., Schultz, C., Hodson, D. (2018).
Nat Rev Endocrinol. 2018 Dec;14(12):721-737.
DOI: 10.1038/s41574-018-0105-2.
Surface Immobilization of Viruses and Nanoparticles Elucidates Early Events in Clathrin-mediated Endocytosis.
Fratini, M., Wiegand, T., Funaya, C., Spatz, J. P., Cavalcanti-Adam, E. A., Boulant, S. (2018).
ACS Infect Dis. 2018 Nov 9;4(11):1585-1600. Epub 2018 Sep 26.
DOI: 10.1021/acsinfecdis.8b00134.
Expansion Stimulated Emission Depletion Microscopy (ExSTED).
Gao, M., Maraspini, R., Beutel, O., Zehtabian, A., Eickholt, B., Honigmann, A., Ewers, H. (2018).
ACS Nano. 2018 May 22;12(5):4178-4185. Epub 2018 Apr 19.
DOI: 10.1021/acsnano.8b00776.
Endogenous Fatty Acids are Essential Autocrine Signaling Factors of Pancreatic β-Cells and Insulin Secretion.
Hauke, S., Keutler, K., Phapale, P., Yushchenko, D., Schultz, C. (2018).
Diabetes. 2018 Oct;67(10):1986-1998.
DOI: doi.org/10.2337/db17-1215.
The Evolution of Variability and Robustness in Neural Development.
Hiesinger, P. R., Hassan, B. A. (2018).
Trends in Neuroscience 41(9):577-586.
DOI: 10.1016/j.tins.2018.05.007.
The where, what, and when of membrane protein degradation in neurons.
Jin, E. J., Kiral, F. R., Hiesinger, P. R. (2018).
Dev Neurobiol. 2018 Mar;78(3):283-297. Epub 2017 Sep 19. Review.
DOI: 10.1002/dneu.22534.
Live observation of two parallel membrane degradation pathways at axon terminals.
Jin, E. J., Kiral, F. R., Özel, M. N., Burchardt, L. S., Osterland, M., Epstein, D., Wolfenberg, H., Prohaska, S., Hiesinger, P. R. (2018).
Curr. Biol., 28(7):1027-1038.e4.
DOI: 10.1016/j.cub.2018.02.032.
PTEN suppresses axon outgrowth by down-regulating the level of detyrosinated microtubules.
Kath, C., Goni-Oliver, P., Müller, R., Schultz, C., Haucke, V., Eickholt, B., Schmoranzer, J. (2018).
PLoS One 13, e0193257.
DOI: 10.1371/journal.pone.0193257.
Unconventional secretion mediates the trans-cellular spreading of tau.
Katsilenos, T., Zeitler, M., Dimou, E., Karakatsani, A., Müller, H. M., Nachman, E., Steringer, J. P., Ruiz de Almodovar, C., Nickel, W., Jahn, T. R. (2018).
Cell Rep 23:2039-2055.
DOI: 10.1016/j.celrep.2018.04.056.
Rab GTPases and Membrane Trafficking in Neurodegeneration.
Kiral, F. K., Kohrs, F., Jin, E. J. and Hiesinger, P. R. (2018).
Curr Biol. 2018 Apr 23;28(8):R471-R486.
DOI: 10.1016/j.cub.2018.02.010.
A potent and selective PARP11 inhibitor suggests coupling between cellular localization and catalytic activity.
Kirby, I. T., Kojic, A., Arnold, M. R., Thorsell, A.-G., Karlberg, T., Vermehren-Schmaedick, A., Sreenivasan, R., Schultz, C., Schüler, H., Cohen M. S. (2018).
Cell Chem Biol. 2018 Dec 20;25(12):1547-1553.e12. Epub 2018 Oct 18.
DOI: 10.1016/j.chembiol.2018.09.011.
Novel lipid tools and probes for biological investigations.
Laguerre, A., Schultz, C. (2018).
Curr Opin Cell Biol. 2018 Aug;53:97-104. Epub 2018 Jul 14. Review.
DOI: 10.1016/j.ceb.2018.06.013.
VAMPnets for deep learning of molecular kinetics.
Mardt, A, Pasquali, L., Wu, H., Noé, F. (2018).
Nature Communicationsvolume 9, Article number: 5 (https://www.nature.com/articles/s41467-017-02388-1)
DOI: 10.1038/s41467-017-02388-1.
Inhibition of calpain-1 stabilizes TCF11/Nrf1 but does not affect its activation in response to proteasomal inhibition.
Nowak, K., Taubert, R. M., Haberecht, S., Venz, S., Krüger, E. (2018).
Biosci Rep. 2018 Sep 3. pii: BSR20180393. [Epub ahead of print].
DOI: 10.1042/BSR20180393.
Control of SUMO and Ubiquitin by ROS: Signaling and disease implications.
Stankovic-Valentin, N., Melchior, F. (2018).
Mol Aspects Med. 63, 3-17. (Review).
DOI: 10.1016/j.mam.2018.07.002
Autoregulation of class II alpha PI3K activity by its lipid binding PX-C2 domain module.
Wang, H., Lo, W. T., Vujičić Žagar, A., Gulluni, F., Scapozza, L., Haucke, V.*, Vadas, O.* (2018).
Mol. Cell, 71, 343-351(*co-corresponding authors).
DOI: 10.1016/j.molcel.2018.06.042.
Phosphoinositide conversion in endocytosis and in the endolysosomal system.
Wallroth, A., Haucke, V. (2018).
J Biol Chem. 2018 Feb 2;293(5):1526-1535. Epub 2017 Dec 27.
DOI: 10.1074/jbc.R117.000629.
Deep Generative Markov State Models.
Wu, H., Mardt, A., Pasquali, L., Noé, F., (2018).
32nd Conference on Neural Information Processing Systems (NeurIPS 2018), Montréal, Canada.
A click cage: Organelle-specific uncaging of lipid mes- sengers.
Wagner, N., Stephan, M., Höglinger, D., Nadler, A., (2018).
Angew Chem Int Ed Engl, 57:13339-13343.
Vesicle release site organization at synaptic active zones.
Walter, A. M.#, Bohme, M. A., and Sigrist, S. J.# (2018).
Neurosci Res 127, 3-13; (#:correspondence).
Co-existing feedback loops generate tissue- specific circadian rhythms.
Pett, J. P., Kondoff, M., Bordyugov, G., Kramer, A., Herzel, H. (2018).
Life Sci Alliance 1:e201800078.
Heterozygous truncating variants in POMP escape nonsense-mediated decay and cause a unique immune dysregulatory syndrome.
Poli, M. C., Ebstein, F., Nicholas, S. K., de Guzman, M. M., Forbes, L. R., Chinn, I. K., Mace, E. M., Vogel, T. P., Carisey, A. F., Benavides, F., Coban-Akdemir, Z. H., Gibbs, R. A., Jhangiani, S. N., Muzny, D. M., Carvalho, C. M. B., Schady, D. A., Jain, M., Rosenfeld, J. A., Emrick, L., Lewis, R. A., Lee, B., Undiagnosed Diseases Network members, Zieba, B. A., Küry, S., Krüger, E., Lupski, J. R., Bostwick, B. L., Orange, J. S. (2018).
Am. J. Hum. Genet. 102(6):1126-1142.
An emerging case for membrane pore formation as a common mechanism for the unconventional secretion of FGF2 and IL-1beta.
Brough, D., Pellegrin, P., and Nickel, W. (2017).
J Cell Sci 130:3197-3202.
DOI: 10.1242/jcs.204206.
The coding and noncoding transcriptome of Neurospora crassa.
Cemel, I. A., Ha, N., Schermann, G., Yonekawa, S., Brunner, M. (2017).
BMC Genomics, 18(1), 978.
DOI: 10.1186/s12864-017-4360-8.
Optical control of GPR40 signalling in pancreatic ß-cells.
Frank, J. A., Yushchenko, D. A., Fine, N. H. F., Duca, M., Citir, M., Broichhagen, J., Hodson, D. J., Schultz, C., Trauner, D. (2017).
Chem. Sci. 8, 7604-7610.
DOI: 10.1039/c7sc01475a.
Trifunctional lipid probes for comprehensive studies of single lipid species in living cells.
Höglinger, D., Nadler, A., Haberkant, P., Kirkpatrick, J., Schifferer, M., Stein, F., Hauke, S., Porter, F. D., Schultz, C. (2017).
Proc. Natl. Acad. Sci. USA 114, 1566-1571.
DOI: 10.1073/pnas.1611096114.
Reciprocal regulation of carbon monoxide metabolism and the circadian clock.
Klemz, R., Reischl, S., Wallach, T., Witte, N., Jürchott, K., Klemz, S., Lang, V., Lorenzen, S., Knauer, M., Heidenreich, S., Xu, M., Ripperger, J. A., Schupp, M., Stanewsky, R., Kramer, A. (2017).
Nat Struct Mol Biol. 2017 Jan;24(1):15-22.
DOI: 10.1073/pnas.1611096114.
Thiolutin is a zinc chelator that inhibits the Rpn11 and other JAMM metalloproteases.
Lauinger, L., Li, J., Shostak, A., Cemel, I. A., Ha, N., Zhang, Y., Merkl, P. E., Obermeyer, S., Stankovic-Valentin, N., Schafmeier, T., Wever, W. J., Bowers, A. A., Carter, K. P., Palmer, A. E., Tschochner, H., Melchior, F., Deshaies, R. J., Brunner, M., Diernfellner, A. (2017).
Nat Chem Biol. 2017 Jul;13(7):709-714.
DOI: 10.1038/nchembio.2370.
mTORC1 activity repression by late endosomal phosphatidylinositol 3,4-bisphosphate.
Marat, A. L., Wallroth, A., Lo, W. T., Müller, R., Norata, G. D., Falasca, M., Schultz, C., Haucke, V. (2017).
Science. 2017 Jun 2;356(6341):968-972
DOI: 10.1126/science.aaf8310
Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function.
Piwecka, M., Glažar, P., Hernandez-Miranda, L. R., Memczak, S., Wolf, S. A., Rybak-Wolf, A., Filipchyk, A., Klironomos, F., Cerda Jara, C. A., Fenske, P., Trimbuch, T., Zywitza, V., Plass, M., Schreyer, L., Ayoub, S., Kocks, C., Kühn, R., Rosenmund, C., Birchmeier, C., Rajewsky, N. (2017).
Science. 2017 Sep 22;357(6357). pii: eaam8526
DOI: 10.1126/science.aam8526
Stable Positioning of Unc13 Restricts Synaptic Vesicle Fusion to Defined Release Sites to Promote Synchronous Neurotransmission.
Reddy-Alla, S., Böhme, M. A., Reynolds, E., Beis, C., Grasskamp, A. T., Mampell, M. M., Maglione, M., Jusyte, M., Rey, U., Babikir, H., McCarthy, A. W., Quentin, C., Matkovic, T., Bergeron, D .D., Mushtaq, Z., Göttfert, F., Owald, D., Mielke, T., Hell, S. W., Sigrist, S. J., Walter, A. M. (2017).
Neuron. 2017 Sep 13;95(6):1350-1364.e12.
DOI: 10.1016/j.neuron.2017.08.016.
Flavivirus infection uncouples translation suppression from cellular stress responses.
Roth, H., Magg, V., Uch, F., Mutz, P., Klein, P., Haneke, K., Lohmann, V., Bartenschlager, R., Fackler, O.T., Locker, N., Stoecklin, G., Ruggieri, A. (2017)
MBio. 2017 Jan 10;8(1). pii: e02150-16.
DOI: 10.1128/mBio.02150-16.
A Ratiometric Sensor for Imaging Insulin Secretion in Single β Cells.
Schifferer, M., Yushchenko, D. A., Hodson, D. J., Bolbat, A., Stein, F., Schultz, C. (2017).
Cell Chem Biol. 2017 Apr 20;24(4):525-531.e4.
DOI: 10.1016/j.chembiol.2017.03.001.
Key steps in unconventional secretion of fibroblast growth factor 2 reconstituted with purified components.
Steringer, J. P., Lange, S., Čujová, S., Šachl, R., Poojari, C., Lolicato, F., Beutel, O., Müller, H.M., Unger, S., Coskun, Ü., Honigmann, A., Vattulainen I, Hof, M., Freund, C., Nickel, W. (2017).
Elife. 2017 Jul 19;6. pii: e28985.
DOI: 10.7554/eLife.28985.
Principles for circadian orchestration of metabolic pathways.
Thurley, K., Herbst, C., Wesener, F., Koller, B., Wallach, T., Maier B, Kramer, A., Westermark, P. O. (2017).
Proc Natl Acad Sci U S A. 2017 Feb 14;114(7):1572-1577.
DOI: 10.1073/pnas.1613103114.
A lipid off-switch for mTORC1.
Wallroth, A., Haucke, V. (2017).
Mol. Cell. Oncol. 4:e1356899.
DOI: 10.1080/23723556.2017.1356899.
Phosphatidylinositol 4,5-bisphosphate optical uncaging potentiates exocytosis.
Walter, A. M., Müller, R., Tawfik, B., Wierda, K. D., Pinheiro, P. S., Nadler, A., McCarthy, A. W., Ziomkiewicz, I., Kruse, M., Reither, G., Rettig, J., Lehmann, M., Haucke, V., Hille, B., Schultz, C., Sorensen, J. B. (2017).
Elife. 2017 Oct 25;6. pii: e30203.
DOI: 10.7554/eLife.30203.
Wiring visual systems: common and divergent mechanisms and principles.
Kolodkin, A. L. and Hiesinger, P. R. (2017).
Curr. Opin. Neurobiol. 42:128-135.
The host-cell restriction factor SERINC5 restricts HIV-1 infectivity without altering the lipid composition and organization of viral particles.
Trautz B., Wiedemann, H., Lüchtenborg, C., Pierini, V., Kranich, J., Glass, B., Kräusslich, H. G., Brocker, T., Pizzato, M., Ruggieri, A., Brügger, B., Fackler, O. T. (2017).
J Biol Chem. 292(33):13702-13713.
Protein-peptide association kinetics beyond the seconds timescale from atomistic simulations.
Paul, F., Wehmeyer, C., Abualrous, E. T., Wu, H., Crabtree. M. D., Schöneberg, J., Clarke, J., Freund, C., Weikl, T. R., Noé, F. (2017).
Nat. Commun. 8, 1095.
MHC class II complexes sample intermediate states along the peptide exchange pathway
Wieczorek, M., Sticht, J., Stolzenberg, S., Günther, S., Wehmeyer, C,. El Habre, Z., Alvaro-Benito, M., Noé, F.*, Freund, C*. (2017).
Nature Communications 7, 13224 (2017)
DOI: 10.1038/ncomms13224
Photoswitchable diacylglycerols enable optical control of protein kinase C.
Frank, J. A., Yushchenko, D. A., Hodson, D. J., Lipstein, N., Nagpal, J., Rutter, G. A., Rhee, J.-S., Gottschalk, A., Brose, N., Schultz*, C., Trauner*, D. (2016).
Nat. Chem. Biol. 12, 755-762 (2016).
DOI: 10.1038/nchembio.2141
Small Molecule Inhibitors Targeting Tec Kinase Block Unconventional Secretion of Fibroblast Growth Factor 2.
La Venuta, G., Wegehingel, S., Sehr, P., Müller, H. M., Dimou, E., Steringer, J. P., Grotwinkel, M., Hentze, N., Mayer, M. P., Will, D. W., Uhrig, U., Lewis, J. D., Nickel, W. (2016).
J Biol Chem. 2016 Aug 19;291(34):17787-803.
DOI: 10.1074/jbc.M116.729384
Feedback Loops of the Mammalian Circadian Clock Constitute Repressilator.
Pett, J. P., Korenčič, A., Wesener, F., Kramer, A., Herzel, H. (2016).
PLoS Comput Biol. 2016 Dec 12;12(12):e1005266.
DOI: 10.1371/journal.pcbi.1005266
Interactions Between SNAP-25 and Synaptotagmin-1 Are Involved in Vesicle Priming, Clamping Spontaneous and Stimulating Evoked Neurotransmission.
Schupp, M., Malsam, J., Ruiter, M., Scheutzow, A., Wierda, K. D., Söllner, T. H. and Sørensen, J. B. (2016).
J Neurosci 36, 11865-11880.
TCF11/Nrf1-mediated induction of proteasome expression prevents cytotoxicity by rotenone.
Sotzny ,F., Schormann, E., Kühlewindt, I., Koch, A., Brehm, A., Goldbach-Mansky, R., Gilling, K. E., Krüger, E. (2016).
Antioxid. Redox. Signal 25:870-885.
An open-source, high resolution, automated fluorescence microscope. Zehrer, A. C., Martin-Villalba, A., Diederich, B. & Ewers, H. bioRxiv, 2023.2005.2031.542706 (2023). https://doi.org:10.1101/2023.05.31.542706
Nanoscale imaging reveals the mechanisms of ER-to-Golgi transport via a dynamic tubular-vesicular network. Wong-Dilworth, L., Bregu, G., Restel, S., Rodilla-Ramirez, C., Ebeling, S., Harel, S., Leupold, P., Grimm, J., Lavis, L. D., Angulo-Capel, J., Campelo, F. & Bottanelli, F. bioRxiv, 2023.2010.2027.563951 (2023). https://doi.org:10.1101/2023.10.27.563951
PI(3,5)P<sub>2</sub> Controls the Signaling Activity of Class I PI3K. Sun, J., Song, S., Singaram, I., Sharma, A., Wang, W., Hu, Y., Lo, W.-T., Koch, P. A., Zhao, J. J., Haucke, V., Gao, R. & Cho, W. bioRxiv, 2023.2001.2025.525550 (2023). https://doi.org:10.1101/2023.01.25.525550
Multi-functional ARF1 compartments serve as a hub for short-range cargo transfer to endosomes. Stockhammer, A., Adarska, P., Natalia, V., Heuhsen, A., Klemt, A., Harel, S., Rodilla-Ramirez, C., Spalt, C., Özsoy, E., Leupold, P., Grindel, A., Fox, E., Mejedo, J. O., Puchkov, D., Haucke, V. & Bottanelli, F. bioRxiv, 2023.2010.2027.564143 (2023). https://doi.org:10.1101/2023.10.27.564143
CK1δ homeostasis by activity-dependent shuttling and degradation of orphan kinase. Serrano, F. E., Marzoll, D., Ruppert, B., Diernfellner, A. C. R. & Brunner, M. bioRxiv, 2023.2002.2013.528286 (2023). https://doi.org:10.1101/2023.02.13.528286
Are circadian amplitudes and periods correlated? A new <em>twist</em> in the story. Olmo, M. d., Schmal, C., Mizaikoff, C., Grabe, S., Gabriel, C., Kramer, A. & Herzel, H. bioRxiv, 2023.2005.2017.541139 (2023). https://doi.org:10.1101/2023.05.17.541139
Disulfide bridge-dependent dimerization triggers FGF2 membrane translocation into the extracellular space. Lolicato, F., Steringer, J., Saleppico, R., Beyer, D., Fernandez-Sobaberas, J., Unger, S., Klein, S., Riegerová, P., Wegehingel, S., Müller, H., Schmitt, X., Kaptan, S., Freund, C., Hof, M., Šachl, R., Chlanda, P., Vattulainen, I. & Nickel, W. bioRxiv, 2023.2004.2012.536539 (2023). https://doi.org:10.1101/2023.04.12.536539
An optogenetic method for the controlled release of single molecules. Kashyap, P., Bertelli, S., Cao, F., Kostritskaia, Y., Blank, F., Srikanth, N., Saleppico, R., Bierhuizen, D., Lu, X., Nickel, W., Campbell, R. E., Plested, A., Stauber, T., Taylor, M. J. & Ewers, H. bioRxiv, 2023.2009.2016.557871 (2023). https://doi.org:10.1101/2023.09.16.557871
SNAP25 disease mutations change the energy landscape for synaptic exocytosis due to aberrant SNARE interactions. Kádková, A., Murach, J., Pedersen, M. Ø., Malsam, A., Malsam, J., Söllner, T. H. & Sørensen, J. B. bioRxiv, 2023.2005.2021.541607 (2023). https://doi.org:10.1101/2023.05.21.541607
Activation of the mitochondrial unfolded protein response regulates the dynamic formation of stress granules. Jordana, M. L.-N., Sun, Z., Safakli, R., Ruggieri, A., Smyrnias, I. & Locker, N. bioRxiv, 2023.2010.2026.564187 (2023). https://doi.org:10.1101/2023.10.26.564187
The sterol transporter STARD3 transports sphingosine at ER-lysosome contact sites. Hempelmann, P., Lolicato, F., Graziadei, A., Brown, R. D. R., Spiegel, S., Rappsilber, J., Nickel, W., Höglinger, D. & Jamecna, D. bioRxiv, 2023.2009.2018.557036 (2023). https://doi.org:10.1101/2023.09.18.557036
Clementi, C., Charron, N., Musil, F., Guljas, A., Chen, Y., Bonneau, K., Pasos-Trejo, A., Venturin, J., Gusew, D., Zaporozhets, I., Krämer, A., Templeton, C., Kelkar, A., Durumeric, A., Olsson, S., Pérez, A., Majewski, M., Husic, B., Patel, A., De Fabritiis, G. & Noé, F. (Research Square, 2023).
Structure prediction of protein-ligand complexes from sequence information with Umol. Bryant, P., Kelkar, A., Guljas, A., Clementi, C. & Noé, F. bioRxiv, 2023.2011.2003.565471 (2023). https://doi.org:10.1101/2023.11.03.565471
When less is more – Endogenous tagging with TurboID as a tool to study the native interactome of adaptor protein complexes. Stockhammer, A., Benz, L. S., Harel, S., Natalia, V., Wiench, L., Freund, C., Kuropka, B. & Bottanelli, F. bioRxiv, 2021.2011.2019.469212 (2022). https://doi.org:10.1101/2021.11.19.469212