Publications

►Endothelial Dab1 signaling orchestrates neuro-glia-vessel communication in the central nervous system. Segarra M, Aburto MR, Cop F, Llaó-Cid C, Härtl R, Damm M, Bethani I, Parrilla M, Husainie D, SchänzerA, Schlierbach H, Acker T, Mohr L, Torres-Masjoan L, Ritter M, Acker-Palmer A. Science 2018, 361:6404
►GRIP1 regulates ApoER2/ephrinB2 functions at the synapse. Pfennig S#, Foss F#, Bissen D,  Harde E, TreeckJ, Segarra M and Acker-Palmer A. Cell Reports 2017, 21:84-96.
►EphrinB2 repression mediates tumor invasion and evasive resistance to anti-angiogenesis. Depner C, ZumButtel H, Böğürcü N, Cuesta AM, Aburto MR, Seidel S, Finkelmeier F, Foss F, Hofmann J, Kaulich K, Barbus S, Segarra M, Reifenberger G, Garvalov BK, Acker T,* Acker-Palmer A*. Nature Communications 2016, 7:12329 *equal contribution.
►Loss of PHD3 allows tumours to overcome hypoxic growth inhibition and sustain proliferation through EGFR. Henze AT, Garvalov BK, Seidel S, Cuesta A, Ritter M, Filatova A, Foss F, Dopeso H, Essmann CL, Maxwell PH, Reifenberger G, Carmeliet P, Acker-Palmer A*, Acker T*. Nature Communications 2014, 5:5582 *equal contribution.
►PHD3 regulates EGFR internalization and signaling in tumours. Garvalov BK*, Foss F*, Henze, AT, Bethani I, Gräf-Höchst S, Singh D, Filatova A, Dopeso H, Seidel S, Damm M, Acker-Palmer A*, Acker T*. Nature Communications 2014, 5:5577 *equal contribution.
►The GRIP1/14-3-3 pathway coordinates cargo trafficking and dendrite development. Geiger JC, Lipka J, Segura I, Hoyer S, Schlager MA, Wulf PS, Weinges S, Demmers J, Hoogenraad CC, Acker-Palmer A. Developmental Cell 2014, 28:381-393.
►EphrinBs are essential components of the Reelin pathway to regulate neuronal migration. Senturk A., Pfennig S, Weiss A, Burk K, Acker-Palmer, A. Nature 2011, 472:356-60 (Erratum 478:274).
►EphrinB2 regulates VEGFR2 function in developmental and tumour angiogenesis. Sawamiphak S, Seidel S, Essmann CL, Wilkinson G, Pitulescu ME, Acker T, Acker-Palmer A. Nature 2010, 465:487-491.
►Serine phosphorylation of ephrinB2 regulates trafficking of synaptic AMPA receptors. Essmann CL, Martinez E, Geiger J, Zimmer M, Traut M,Stein V, Klein R, Acker-Palmer A. Nature Neuroscience 2008, 11:1035–1043.
►Grb4 and GIT1 transduce ephrinB reverse signals modulating spine morphogenesis and synapse formation. Segura I, Essmann CL, Weinges S, Acker-Palmer A. Nature Neuroscience 2007, 10:301-310.
►Cryo-electron tomography analyses of terminal organelle mutants suggest the motility mechanism of Mycoplasma genitalium. Seybert A, Gonzalez-Gonzalez L, Scheffer MP, Lluch-Senar M, Mariscal AM,Querol E, Matthaeus F, Piñol J, Frangakis AS. Mol Microbiol 2018, 319-329. doi: 10.1111/mmi.13938.
►Structural characterization of the NAP; the major adhesion complex of the human pathogen Mycoplasma genitalium. Scheffer MP, Gonzalez-Gonzalez L, Seybert A, Ratera M, Kunz M, Valpuesta JM, Fita I, Querol E, Piñol J, Martín-Benito J, Frangakis AS. Mol Microbiol 2017, 105, 869-879.
►Structure of RNA polymerase I transcribing ribosomal DNA genes. Neyer S, Kunz M, Geiss C, Hantsche M; Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS. Nature 2016, 540, 607–610.
►Three-dimensional CTF correction improves the resolution of electron tomograms. Kunz M, Frangakis AS. J Structural Biology 2016, 197,114-122.
►Quantitative analysis of cytoskeletal reorganization during epithelial tissue sealing by large-volume electron tomography. Eltsov M, Dubé N, Yu Z, Pasakarnis L, Haselmann-Weiss U, Brunner D, Frangakis AS.Nature Cell Biology 2015, 17, 605-614.
►Super-sampling SART with ordered subsets. Kunz M, Frangakis AS. J Structural Biology 2014, 188, 107-115.
►M-free: scoring the reference bias in sub-tomogram averaging and template matching. Yu Z, Frangakis AS. J Structural Biology 2014, 187,10-19.
►Correlative Light- and Electron Microscopy with chemical tags. Perkovic M, Kunz M, Endesfelder U, Bunse S, Wigge C, Yu Z, Hodirnau VV, SchefferMP, Seybert A, Malkusch S, Schuman EM, Heilemann M, FrangakisAS. J Structural Biology 2014, 186, 205–213.
►Heritable yeast prions have a highly organized three-dimensional architecture with interfiber structures. SaibilHR, Seybert A, Habermann A, Winkler J, Eltsov M, Perkovic M, Castaño-Diez D, Scheffer MP, HaselmannU, Chlanda P, Lindquist S, Tyedmers J, Frangakis AS. Proc Natl Acad Sci U S A 2012, 109, 14906-14911.
►Evidence for short-range helical order in the 30-nm chromatin fibers of erythrocyte nuclei. Scheffer MP, EltsovM, Frangakis AS. Proc Natl Acad Sci U S A 2011, 108, 16992-16997.
►The molecular architecture of cadherins in native epidermal desmosomes. Al-Amoudi A, Díez DC, Betts MJ, Frangakis AS. Nature 2007, 450, 832-837.
►Whole-cell, 3D and multicolor STED imaging with exchangeable fluorophores. Spahn C, Grimm JB, Lavis LD, Lampe M, Heilemann M*. Nano Letters 2019, 19, 500-505.
►Correlative Single-Molecule FRET and DNA-PAINT Imaging Deussner-Helfmann NS, Auer A, Strauss MT, Malkusch S, Dietz MS, Barth HD, Jungmann R, Heilemann M*. Nano Letters 2018, 16, 4626-30.
►Quantitative single-molecule imaging of TLR4 reveals ligand-specific receptor dimerization. Krüger CL, ZeunerMT, Cottrell GS, Widera D, Heilemann M*. Science Signaling 2017,10, eaan1308.
►Linear ubiquitination of cytosolic Salmonella locally activates NF-ĸB and restricts bacterial proliferation. Van Wijk SJL, Fricke F, Herhaus L, Hötte K, Pampaloni F, Fulda S, Heilemann M*, Dikic I*. Nature Microbiology 2017, 8, 2:17066.
►Temporal accumulation analysis provides simplified artifact-free analysis of membrane-protein nanoclusters. Spahn C, Herrmannsdörfer F, Kuner T, Heilemann M*. Nature Methods 2016, 13, 963-964.
►A set of homo-oligomeric standards allows accurate protein counting. Finan K, Raulf A, Heilemann M*.Angewandte Chemie 2015, 54, 12049-52.
►SLAP: Small Labelling Pair for Single-Molecule Super-Resolution Imaging. Wieneke R, Raulf A, KollmanspergerA, Heilemann M*, Tampé R*. Angewandte Chemie 2015, 54, 10216-9.
►Arts and artifacts in single-molecule localization microscopy – beyond attractive images. Endesfelder U,Heilemann M*. Nature Methods 2014, 11(3), 235-8.
►Super-resolution fluorescence imaging of chromosomal DNA using click chemistry. Zessin P, Finan K, Heilemann M*. Journal of Structural Biology 2012, 177, 344-348.
►Monitoring multiple distances within a single molecule using switchable FRET. Uphoff S, Holden SJ, Le Rest L, Periz J, van de Linde S, Heilemann M, Kapanidis AN. Nature Methods 2010, 7, 831-6.
►Distributed network interactions and their emergence in developing neocortex. Smith GB, Hein B, Whitney DE, Fitzpatrick D*, Kaschube M*. Nature Neuroscience 2018, 21:1600-1608. *jointly directed work 
►Elucidating the control and development of skin patterning in cuttlefish. Reiter S, Hülsdunk P, Woo T, Lauterbach MA, Eberle JS, Akay LA, Longo A, Meier-Credo J, Kretschmer F, Langer JD, Kaschube M, Laurent G. Nature 2018, 562:361-366.
►The development of cortical circuits for motion discrimination. Smith GB, Sederberg A, Elyada YM, Van HooserSD, Kaschube M*, Fitzpatrick D*. Nature Neuroscience 2015, 18:252-261. *jointly directed work
►Quantitative 4D analyses of epithelial folding during Drosophila gastrulation. Khan Z, Wang YC, Wieschaus EF, Kaschube M. Development 2014, 141:2895-2900.
►Volume conservation principle involved in cell lengthening and nucleus movement during tissue morphogenesis. Gelbart MA, He B, Martin AC, Thiberge SY, Wieschaus EF, Kaschube M. Proc Natl Acad Sci USA 2012,109:19298–19303.
►Differential positioning of adherens junctions is associated with initiation of epithelial folding. Wang YC, Khan Z, Kaschube M, Wieschaus EF. Nature 2012, 484:390–393.
►Universality in the evolution of orientation columns in the visual cortex. Kaschube M, Schnabel M, Löwel S, Coppola DM, White LE, Wolf F. Science 2010, 330:1113–1116.
►Reorganization of columnar architecture in the growing visual cortex. Keil W, Schmidt K-F, Löwel S, Kaschube M. Proc Natl Acad Sci USA 2010, 107:12293–12298.
►Pulsed contractions of an actin-myosin network drive apical constriction. Martin AC, Kaschube M, WieschausEF. Nature 2009, 457:495–499.
►Interareal coordination of columnar architectures during visual cortical development. Kaschube M, Schnabel M, Wolf F, Löwel S. Proc Natl Acad Sci USA 2009, 106:17205–17210.
►Interacting signalling and cellular waves pattern the feather array. W.K.W. Ho, L. Freem, D. Zhao, M.J. McGrew, K.J. Painter, T. Woolley, E. A. Gaffney, A. Tzika, M. Milinkovitch, P. Schneider, A. Drusko, F. Matthäus, J.L. Glover, H.M. Sang, M.G. Davey, K.L. Wells, J.A. Johansson, M. Clinton, D.J. Headon. PLoS Biology 2019, 17 (2), e3000132.
►Hierarchical patterning modes orchestrate hair follicle morphogenesis. J.D. Glover, K.L. Wells, F. Matthäus, K.J. Painter, W. Ho, J. Riddell, J.A. Johansson, M. Ford, C.A.B. Jahoda, V. Klika, R.L. Mort, and D.J. Headon. PLoS Biology 2017, 15(7):e2002117.
►An individual-based model for the collective cancer cell migration explains speed dynamics and phenotype variability in response to growth factors. D. Stichel, A.M. Middleton, B.F. Müller, S. Depner, U. Klingmüller, K. Breuhahn, F. Matthäus. NPJ Systems Biology and Applications 2017, 3, Art. no. 5,  DOI:10.1038/s41540-017-0006-3.
►TCCA: An R package for the identification of differentially expressed genes in time course microarray data. M. Albrecht, D. Stichel, B.F. Müller, R. Merkle, C. Sticht, N. Gretz, U. Klingmüller, K. Breuhahn, F. Matthäus.BMC Bioinformatics 2017, 18:33. 
►Concomitant expression of far upstream element (FUSE) binding protein (FBP) interacting repressor (FIR) and its splice variants induce migration and invasion of non-small cell lung cancer (NSCLC) cells. B. Müller*, M. Bovet*, Y. Yin*, D. Stichel*, M. Malz, A.M. Middleton, V. Ehemann, J. Schmitt, T. Muley, M. Meister, E. Herpel, S. Singer, A. Warth, P. Schirmacher, D. Drasdo$, F. Matthäus$, K. Breuhahn$.  J Pathol 2015, 237:390-401.
►Stathmin regulates keratinocyte proliferation and migration during cutaneous regeneration. S. Schmitt, K. Safferling, K. Westphal, M. Hrabowski, U. Müller, P. Angel, L. Wiechert, V. Ehemann, B. Müller, S. Holland-Cunz, D. Stichel, N. Harder, K. Rohr, G. Germann, F. Matthäus, P. Schirmacher, N. Grabe, K. Breuhahn. PLoS One 2013, 8(9): e75075.
►Effects of age on the structure of functional connectivity networks during episodic and working memory demand. F. Matthäus, J.-P. Schmidt, A. Banerjee, T.G. Schulze, T. Demirakca, C. Diener. Brain Connectivity 2012, 2(3), DOI: 10.1089/brain.2012.0077.
►On the origin and characteristics of noise-induced Lévy walks of E. coli. F. Matthäus, M.S. Mommer, T. Curk, J. Dobnikar. PLoS One 2011, 6(4):e18623.
►E. coli superdiffusion and chemotaxis – search strategy, precision and motility. F. Matthäus, M. Jagodič, J. Dobnikar. Biophys J 2009, 97(4): 946-957.
►A universal vector concept for a direct genotyping of transgenic organisms and a systematic creation of homozygous lines. Strobl F, Anderl A, Stelzer EHK. eLife 2018, 7:e31677. doi: 10.7554/eLife.31677.
►Oocyte DNA damage quality control requires consecutive interplay of CHK2 and CK1 to activate p63. Tuppi M, Kehrloesser S, Coutandin DW, Rossi V, Luh LM, Strubel A, Hötte K, Hoffmeister M, Schäfer B, De Oliveira T, Greten F, Stelzer EHK, Knapp S, De Feliciv M, Behrends C, Klinger FG, Dötsch V. Nature Structural & Molecular Biology 2018, volume 25, p 261–269. doi:10.1038/s41594-018-0035-7.
►csiLSFM combines light-sheet fluorescence microscopy and coherent structured illumination for a lateral resolution below 100 nm. Chang BJ, Perez Meza VD, Stelzer EHK. PNAS 2017, 114(19):4869-4874.
►Rules and Self-Organizing Properties of Post-embryonic Plant Organ Cell Division Patterns, von Wangenheim D, Fangerau J, Schmitz A, Smith RS, Leitte H, Stelzer EHK, Maizel A. Current Biology 2016, 26:1–11.
►Live imaging of Tribolium castaneum embryonic development using light-sheet–based fluorescence microscopy. Strobl F, Schmitz A,Stelzer EHK. Nature Protocols 2015, 10:1486.1507.
►Light-sheet fluorescence microscopy for quantitative biology. Stelzer EHK. Nature Methods 2015, 12(1):23–27.
►Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy. Keller PJ, Schmidt AD, Santella A, Khairy K, Bao Z, Wittbrodt J, Stelzer EHK. Nature Methods 2010, 7(8):637-642.
►The third dimension bridges the gap between cell culture and live tissue. Pampaloni F, Reynaud EG, Stelzer EHK. Nature Reviews Molecular Cell Biology 2007, 8(10):839-845.
►Reconstruction of zebrafish early embryonic development by Scanned Light Sheet Microscopy. Keller PJ, Schmidt AD, Wittbrodt J, Stelzer EHK. Science 2008, 322(5904):1065-1069.
►Optical sectioning deep inside live embryos by selective plane illumination microscopy. Huisken J, Swoger J, Del Bene F, Wittbrodt J, Stelzer EHK. Science 2004, 305:1007-1009.
►How mRNA localization and protein synthesis sites influence dendritic protein distribution and dynamics. Fonkeu Y, Kraynuykova N, Hafner A-S, Sartori F, Schuman EM, Tchumatchenko T. NEURON 2019, doi: 10.1016/j.neuron.2019.06.022.
►Stabilized supralinear network can give rise to bistable, oscillatory and persistent activity. Kraynyukova N, Tchumatchenko T. PNAS 2018, 201700080.
►How linear response shaped models of neural circuits and the quest for alternative. Herfurth T, Tchumatchenko T. Curr OpinNeurobiol 2017, 6, 234-240.
►Pairwise spike correlations fully capture the information content of a neuron. Dettner A, Muenzberg S, Tchumatchenko T. Nature Communcations 2016, 7, 13805.
►Synaptic unreliability facilitates information transmission in balanced cortical populations. Gatys LA, Ecker AS, Tchumatchenko T, Bethge M. Phys Rev E 2015, 91, 062707.
►Oscillations emerging from noise-driven steady state in networks with electrical synapses and subthreshold resonance. Tchumatchenko T, Clopath C. Nature Communications 2014, 5, 5512.
►A cochlear-bone wave can yield hearing sensation as well as otoacoustic emission. Tchumatchenko T, Reichenbach T. Nature Communications 2014, 5, 4160.
►Ultrafast Population Encoding by Cortical Neurons. T. Tchumatchenko, A. Malyshev, F. Wolf and M. Volgushev. J Neurosci 2011, 31 (34) 12171-12179.
►Delivery of time-varying stimuli using ChR2. Tchumatchenko T, Newman JP, Fong M-F, Potter S. Front Neural Circuits 2013, 7:184.
►Correlations and synchrony in threshold neuron models. T. Tchumatchenko, A. Malyshev, T. Geisel, M. Volgushev and F. Wolf. Phys Rev Lett 2010, 104 (5), 058102.
►Vibrational spectroscopic imaging and live cell video microscopy for studying differentiation of primary human alveolar epithelial cells. Vukosavljevic B, Hittinger M, Hachmeister H, Pilger C, Murgia X, Gepp M, Gentile L, Huwer H, Schneider-Daum N, Huser T, Lehr CM, Windbergs M. J Biophotonics 2019, e201800052.
►Tracing molecular and structural changes upon mucolysis with N-acetyl cysteine in human airway mucus. Vukosavljevic B, Murgia X, Schwarzkopf K, Schaefer UF, Lehr CM, Windbergs M. Int J Pharm 2017, 533, 373-376.
►Intracellular delivery of poorly soluble polyphenols – elucidating the interplay of self-assembling nanocarriers and human chondrocytes. Kann B, Spengler C, Coradini K, Rigo LA, Bennink M, Jacobs K, Offerhaus HL, Beck RCR, Windbergs M. Anal Chem 2016, 88, 7014-7022.
►Three-dimensional hierarchical cultivation of human skin cells on bio-adaptive hybrid fibers. Planz V, Seif S, Atchinson J, Vukosavljevic B, Sparenberg L, Kroner E, Windbergs M. Integr Biol 2016, 8, 775-784.
►Skin penetration behaviour of lipid-core nanocapsules for simultaneous delivery of resveratrol and curcumin. Friedrich RB, Coradini K, Kann B, Beck RCR, Windbergs M. Eur J Pharm Sci 2015, 78, 204-213.
►Overcoming drug crystallization in electrospun fibers – elucidating key parameters and developing strategies for drug delivery. Seif S, Franzen L, Windbergs M. Int J Pharm 2015, 478, 390-397.
►Biodegradable core-shell carriers for simultaneous encapsulation of synergistic actives. Windbergs M, HeymanJ, Zhao J, Weitz DA. J Am Chem Soc. 2013, 135, 7933-7937. Featured in Science 2013, 340, 1016-1017.
►Towards drug quantification in human skin with confocal Raman microscopy. Franzen L, Selzer D, Fluhr J, Schaefer UF, Windbergs M. Eur J Pharm Biopharm 2013, 84, 437-444.
►Drug dissolution chip (DDC): a microfluidic approach for drug release. Windbergs M, Weitz DA. Small 2011, 7, 3011-3015.

►Budesonide loaded nanoparticles with pH-sensitive coating for improved mucosal targeting in inflammatory bowel diseases. Ali H, Weigmann B, Neurath MF, Collnot EM, Windbergs M, Lehr CM. J Control Release 2014, 183, 167-177.