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Publications supported by BIOSS

2013

Remote-controlled hydrogel depots for time-scheduled vaccination

Gübeli RJ, Hövermann D, Seitz H, Rebmann B, Schoenmakers RG, Ehrbar M, Charpin-El Hamri G, Daoud-El Baba M, Werner M, Müller M, Weber W

Adv. Funct. Mater. 2013, DOI: 10.1002/adfm.201300875

A generic strategy for pharmacological caging of growth factors for tissue engineering

Karlsson M, Lienemann PS, Sprossmann N, Heilmann K, Brummer T, Lutolf MP, Ehrbar M, Weber W.

Chem Commun (Camb). 2013 May 28. [Epub ahead of print]

Enlightening the brain: Linking deep brain photoreception with behavior and physiology

Fernandes AM, Fero K, Driever W, Burgess HA.

Bioessays. 2013 May 26 [Epub ahead of print]

Redox Proteomics uncovers peroxynitrite-sensitive proteins that help Escherichia coli to overcome nitrosative stress

Lindemann C, Lupilova N, Muller A, Warscheid B, Meyer HE, Kuhlmann K, Eisenacher M, Leichert LI.

J Biol Chem. 2013 May 21. [Epub ahead of print]

Semi-supervised prediction of SH2-peptide interactions from imbalanced high-throughput data

Kundu K, Costa F, Huber M, Reth M, Backofen R.

PLoS One. 2013;8(5):e62732

Pasteurella multocida toxin prevents osteoblast differentiation by transactivation of the MAP-kinase cascade via the Gαq/11 - p63RhoGEF - RhoA axis

Siegert P, Schmidt G, Papatheodorou P, Wieland T, Aktories K, Orth JH.

PLoS Pathog. 2013 May;9(5):e1003385

Pharmacologically tunable polyethylene-glycol-based cell growth substrate

Gübeli RJ, Laird D, Ehrbar M, Ritter BS, Steinberg T, Tomakidi P, Weber W

Acta Biomater. 2013 May 16 [Epub ahead of print]

Subcellular mislocalization of the transcription factor NF-E2 in erythroid cells discriminates pre-fibrotic primary myelofibrosis from essential thrombocythemia

Aumann K, Frey AV, May AM, Hauschke D, Kreutz C, Marx JP, Timmer J, Werner M, Pahl HL

Blood. 2013 May 13. [Epub ahead of print]

Zeb1 regulates E-cadherin and Epcam expression to control cell behavior in early zebrafish development

Vannier C, Mock K, Brabletz T, Driever W.

J Biol Chem. 2013 May 10. [Epub ahead of print]

Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons

Booker SA, Gross A, Althof D, Shigemoto R, Bettler B, Frotscher M, Hearing M, Wickman K, Watanabe M, Kulik A, Vida I.

J Neurosci. 2013;33(18):7961-7974

Clostridium difficile binary toxin CDT induces clustering of the lipolysis-stimulated lipoprotein receptor into lipid rafts

Papatheodorou P, Hornuss D, Nölke T, Hemmasi S, Castonguay J, Picchianti M, Aktories K.

MBio. 2013 Apr 30;4(3). doi:pii: e00244-13

Multi-chromatic control of mammalian gene expression and signaling

Müller K, Engesser R, Schulz S, Steinberg T, Tomakidi P, Weber CC, Ulm R, Timmer J, Zurbriggen MD, Weber W.

Nucleic Acids Res. 2013 Apr 26. [Epub ahead of print]

Integrating anatomy and function for zebrafish circuit analysis

Arrenberg AB, Driever W

Front Neural Circuits. 2013;7:74

Ligand-gating by Ca2+ is rate limiting for physiological operation of BKCa channels

Berkefeld H, Fakler B

J Neurosci. 2013;33(17):7358-67

Alterations of Gab2 signalling complexes in imatinib and dasatinib treated chronic myeloid leukaemia cells

Halbach S, Rigbolt KT, Wöhrle FU, Diedrich B, Gretzmeier C, Brummer T, Dengjel J.

Cell Commun Signal. 2013;11(1):30

Network theory inspired analysis of time-resolved expression data reveals key players guiding P. patens stem cell development

Busch H, Boerries M, Bao J, Hanke ST, Hiss M, Tiko T, Rensing SA.

PLoS One. 2013;8(4):e60494.

Acetylation of human TCF4 (TCF7L2) proteins attenuates inhibition by the HBP1 repressor and induces a conformational change in the TCF4::DNA complex

Elfert S, Weise A, Bruser K, Biniossek ML, Jägle S, Senghaas N, Hecht A.

PLoS One. 2013;8(4):e61867

The class III phosphatidylinositol 3-kinase PIK3C3/VPS34 regulates endocytosis and autophagosome-autolysosome formation in podocytes

Bechtel W, Helmstädter M, Balica J, Hartleben B, Schell C, Huber TB

Autophagy. 2013 Apr 15;9(7). [Epub ahead of print]

Profile Likelihood in Systems Biology

Kreutz C, Raue A, Kaschek D, Timmer J.

FEBS J. 2013 Apr 12. [Epub ahead of print]

IκB-ζ deficiency leaves epithelial cells high and dry

Brendecke SM, Prinz M.

Immunity. 2013;38(3):404-6

mTOR inhibits autophagy by controlling ULK1 ubiquitylation, self-association and function through AMBRA1 and TRAF6

Nazio F, Strappazzon F, Antonioli M, Bielli P, Cianfanelli V, Bordi M, Gretzmeier C, Dengjel J, Piacentini M, Fimia GM, Cecconi F.

Nat Cell Biol. 2013;15(4):406-16

Human GII.4 norovirus VLP induces membrane invaginations on giant unilamellar vesicles containing secretor gene dependent α1,2-fucosylated glycosphingolipids

Rydell GE, Svensson L, Larson G, Johannes L, Römer W.

Biochim Biophys Acta. 2013;1828(8):1840-1845

Vps34 deficiency reveals the importance of endocytosis for podocyte homeostasis

Bechtel W, Helmstädter M, Balica J, Hartleben B, Kiefer B, Hrnjic F, Schell C, Kretz O, Liu S, Geist F, Kerjaschki D, Walz G, Huber TB.

J Am Soc Nephrol. 2013 Mar 19. [Epub ahead of print]

Surveillance-activated defenses block the ROS-induced mitochondrial unfolded protein response

Runkel ED, Liu S, Baumeister R, Schulze E.

PLoS Genet. 2013;9(3):e1003346

Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida

Collén J, Porcel B, Carré W, Ball SG, Chaparro C, Tonon T, Barbeyron T, Michel G, Noel B, Valentin K, Elias M, Artiguenave F, Arun A, Aury JM, Barbosa-Neto JF, Bothwell JH, Bouget FY, Brillet L, Cabello-Hurtado F, Capella-Gutiérrez S, Charrier B, Cladière L, Cock JM, Coelho SM, Colleoni C, Czjzek M, Da Silva C, Delage L, Denoeud F, Deschamps P, Dittami SM, Gabaldón T, Gachon CM, Groisillier A, Hervé C, Jabbari K, Katinka M, Kloareg B, Kowalczyk N, Labadie K, Leblanc C, Lopez PJ, McLachlan DH, Meslet-Cladiere L, Moustafa A, Nehr Z, Nyvall Collén P, Panaud O, Partensky F, Poulain J, Rensing SA, Rousvoal S, Samson G, Symeonidi A, Weissenbach J, Zambounis A, Wincker P, Boyen C.

Proc Natl Acad Sci U S A. 2013;110(13):5247-5

AMPA receptor/TARP stoichiometry visualized by single-molecule subunit counting

Hastie P, Ulbrich MH, Wang HL, Arant RJ, Lau AG, Zhang Z, Isacoff EY, Chen L.

Proc Natl Acad Sci U S A. 2013;110(13):5163-8

Incoming RNA virus nucleocapsids containing a 5'-triphosphorylated genome activate RIG-I and antiviral signaling

Weber M, Gawanbacht A, Habjan M, Rang A, Borner C, Schmidt AM, Veitinger S, Jacob R, Devignot S, Kochs G, García-Sastre A, Weber F.

Cell Host Microbe. 2013;13(3):336-46

Pou5f1-dependent EGF expression controls e-cadherin endocytosis, cell adhesion, and zebrafish epiboly movements

Song S, Eckerle S, Onichtchouk D, Marrs JA, Nitschke R, Driever W.

Dev Cell. 2013;24(5):486-501

Non-canonical function of Bax in stress-induced nuclear protein redistribution

Lindenboim L, Ferrando-May E, Borner C, Stein R.

Cell Mol Life Sci. 2013 Mar 9. [Epub ahead of print]

Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote

Schönknecht G, Chen WH, Ternes CM, Barbier GG, Shrestha RP, Stanke M, Bräutigam A, Baker BJ, Banfield JF, Garavito RM, Carr K, Wilkerson C, Rensing SA, Gagneul D, Dickenson NE, Oesterhelt C, Lercher MJ, Weber AP.

Science. 2013;339(6124):1207-10.

N-wasp is required for stabilization of podocyte foot processes

Schell C, Baumhakl L, Salou S, Conzelmann AC, Meyer C, Helmstädter M, Wrede C, Grahammer F, Eimer S, Kerjaschki D, Walz G, Snapper S, Huber TB.

J Am Soc Nephrol. 2013;24(5):713-21

A Boolean view separates platelet activatory and inhibitory signalling as verified by phosphorylation monitoring including threshold behaviour and integrin modulation

Mischnik M, Boyanova D, Hubertus K, Geiger J, Philippi N, Dittrich M, Wangorsch G, Timmer J, Dandekar T.

Mol Biosyst. 2013 Mar 6. [Epub ahead of print]

Optogenetic tools for mammalian systems

Müller K, Weber W

Mol Biosyst. 2013;9(4):596-608.

The proteome of human liver peroxisomes: identification of five new peroxisomal constituents by a label-free quantitative proteomics survey

Gronemeyer T, Wiese S, Ofman R, Bunse C, Pawlas M, Hayen H, Eisenacher M, Stephan C, Meyer HE, Waterham HR, Erdmann R, Wanders RJ, Warscheid B.

PLoS One. 2013;8(2):e57395

Modeling Wnt/β-catenin target gene expression in APC and Wnt gradients under wild type and mutant conditions

Benary U, Kofahl B, Hecht A, Wolf J

Front Physiol 2013, doi: 10.3389/fphys.2013.00021

A novel domain regulating degradation of the glomerular slit diaphragm protein podocin in cell culture systems

Gödel M, Ostendorf BN, Baumer J, Weber K, Huber TB.

PLoS One. 2013;8(2):e57078

Paracaspase MALT1 deficiency protects mice from autoimmune-mediated demyelination

Mc Guire C, Wieghofer P, Elton L, Muylaert D, Prinz M, Beyaert R, van Loo G.

J Immunol. 2013;190(6):2896-903

SF CRISPR: Comparative analysis of Cas6b processing and CRISPR RNA stability

Richter H, Lange SJ, Backofen R, Randau L

RNA Biol. 2013 Feb 7;10(5). [Epub ahead of print]

Love and death: microglia, NLRP3 and the Alzheimer's brain

Goldmann T, Tay TL, Prinz M

Cell Res. 2013 Feb 12. [Epub ahead of print]

Bubble Jet agent release cartridge for chemical single cell stimulation

Wangler N, Welsche M, Blazek M, Blessing M, Vervliet-Scheebaum M, Reski R, Müller C, Reinecke H, Steigert J, Roth G, Zengerle R, Paust N.

Biomed Microdevices. 2013;15(1):1-8

Analysis of interactions between proteins and fatty acids or cholesterol using a fatty acid/cholesterol pull-down assay.

Beck-García E, Beck-García K, Schlosser A, Schamel WW.

Anal Biochem. 2013;436(2):75-7

Molecular fingerprinting of the podocyte reveals novel gene and protein regulatory networks

Boerries M, Grahammer F, Eiselein S, Buck M, Meyer C, Goedel M, Bechtel W, Zschiedrich S, Pfeifer D, Laloë D, Arrondel C, Gonçalves S, Krüger M, Harvey SJ, Busch H, Dengjel J, Huber TB.

Kidney Int. 2013 Jan 30 [Epub ahead of print]

Kidins220/ARMS associates with B-Raf and the TCR, promoting sustained Erk signaling in T cells

Deswal S, Meyer A, Fiala GJ, Eisenhardt AE, Schmitt LC, Salek M, Brummer T, Acuto O, Schamel WW.

J Immunol. 2013;190(5):1927-35

Passive transfer of collagen XVII-specific antibodies induces sustained blistering disease in adult mice

Chiriac MT, Licarete E, Sas AG, Rados AM, Lupan I, Chiriac AM, Speth H, Pop-Vancia V, Domsa I, Sesarman A, Popescu O, Sitaru C.

Orphanet J Rare Dis. 2013;8:17

A red/far-red light-responsive bi-stable toggle switch to control gene expression in mammalian cells

Müller K, Engesser R, Metzger S, Schulz S, Kämpf MM, Busacker M, Steinberg T, Tomakidi P, Ehrbar M, Nagy F, Timmer J, Zubriggen MD, Weber W.

Nucleic Acids Res. 2013 Jan 25. [Epub ahead of print]

Microglia emerge from erythromyeloid precursors via Pu.1- and Irf8-dependent pathways

Kierdorf K, Erny D, Goldmann T, Sander V, Schulz C, Perdiguero EG, Wieghofer P, Heinrich A, Riemke P, Hölscher C, Müller DN, Luckow B, Brocker T, Debowski K, Fritz G, Opdenakker G, Diefenbach A, Biber K, Heikenwalder M, Geissmann F, Rosenbauer F, Prinz M.

Nat Neurosci. 2013 Mar;16(3):273-80

Fabrication of highly porous platinum by cyclic electrodeposition of PtCu alloys: How do process parameters affect morphology?

Kloke A, Köhler C, Dryzga A, Gerwig R, Schumann K, Ade M, Zengerle R, Kerzenmacher S.

Journal of The Electrochemical Society, 160 (3) D111-D118 (2013)

aPKCλ/ι and aPKCζ contribute to Podocyte differentiation and glomerular maturation.

Hartleben B, Widmeier E, Suhm M, Worthmann K, Schell C, Helmstädter M, Wiech T, Walz G, Leitges M, Schiffer M, Huber TB.

J Am Soc Nephrol. 2013;24(2):253-67

A protodermal miR394 signal defines a region of stem cell competence in the Arabidopsis shoot meristem

Knauer S, Holt AL, Rubio-Somoza I, Tucker EJ, Hinze A, Pisch M, Javelle M, Timmermans MC, Tucker MR, Laux T.

Dev Cell. 2013;24(2):125-32

Elevated expression of the V-ATPase C subunit triggers JNK-dependent cell invasion and overgrowth in a Drosophila epithelium

Petzoldt AG, Gleixner EM, Fumagalli A, Vaccari T, Simons M.

Dis Model Mech. 2013;6(3):689-700

Engineered stem cell-derived microglia as therapeutic vehicle for experimental autoimmune encephalomyelitis

Beutner C, Lepperhof V, Dann A, Linnartz-Gerlach B, Litwak S, Napoli I, Prinz M, Neumann H.

Gene Ther. 2013 Jan 17 [Epub ahead of print]

Localization of Rab proteins to peroxisomes: a proteomics and immunofluorescence study

Gronemeyer T, Wiese S, Grinhagens S, Schollenberger L, Satyagraha A, Huber LA, Meyer HE, Warscheid B, Just WW.

FEBS Lett. 2013;587(4):328-38

A T-bet gradient controls the fate and function of CCR6-RORγt+ innate lymphoid cells

Klose CS, Kiss EA, Schwierzeck V, Ebert K, Hoyler T, d'Hargues Y, Göppert N, Croxford AL, Waisman A, Tanriver Y, Diefenbach A.

Nature. 2013;494(7436):261-5

Drosophila ATP6AP2/VhaPRR functions both as a novel planar cell polarity core protein and a regulator of endosomal trafficking

Hermle T, Guida MC, Beck S, Helmstädter S, Simons M.

EMBO J. 2013; 32(2):245-59

Cell loss and autophagy in the extra-adrenal chromaffin organ of Zuckerkandl are regulated by glucocorticoid signalling

Schober A, Parlato R, Huber K, Kinscherf R, Hartleben B, Huber TB, Schütz G, Unsicker K.

J Neuroendocrinol. 2013;25(1):34-47

Sim1a and Arnt2 contribute to hypothalamo-spinal axon guidance by regulating Robo2 activity via a Robo3-dependent mechanism.

Schweitzer J, Löhr H, Bonkowsky JL, Hübscher K, Driever W.

Development. 2013;140(1):93-106

Semi-automatic determination of cell surface areas used in systems biology

Morath V, Keuper M, Rodriguez-Franco M, Deswal S, Fiala G, Blumenthal B, Kaschek D, Timmer J, Neuhaus G, Ehl S, Ronneberger O, Schamel WW.

Front Biosci (Elite Ed). 2013;5:533-45.

Antitumor activities of PSMA×CD3 diabodies by redirected T-cell lysis of prostate cancer cells

Baum V, Bühler P, Gierschner D, Herchenbach D, Fiala GJ, Schamel WW, Wolf P, Elsässer-Beile U.

Immunotherapy. 2013;5(1):27-38

Organization of the resting TCR in nanoscale oligomers

Schamel WW, Alarcón B.

Immunol Rev. 2013;251(1):13-20

Joining forces of Bayesian and frequentist methodology: a study for inference in the presence of non-identifiability

Raue A, Kreutz C, Theis FJ, Timmer J

Philos Transact A Math Phys Eng Sci. 2013, 371(1984):20110544

The Drosophila BMPRII, wishful thinking, is required for eggshell patterning

Marmion RA, Jevtic M, Springhorn A, Pyrowolakis G, Yakoby N.

Dev Biol. 2013;375(1):45-53

The neurovascular unit as a selective barrier to polymorphonuclear granulocyte (PMN) infiltration into the brain after ischemic injury

Enzmann G, Mysiorek C, Gorina R, Cheng YJ, Ghavampour S, Hannocks MJ, Prinz V, Dirnagl U, Endres M, Prinz M, Beschorner R, Harter PN, Mittelbronn M, Engelhardt B, Sorokin L.

Acta Neuropathol. 2013;125(3):395-412

The mitochondrial protein import machinery has multiple connections to the respiratory chain

Kulawiak B, Höpker J, Gebert M, Guiard B, Wiedemann N, Gebert N.

Biochim Biophys Acta. 2012 Dec 26 [Epub ahead of print]

PKD controls mitotic Golgi complex fragmentation through a Raf-MEK1 pathway

Kienzle C, Eisler SA, Villeneuve J, Brummer T, Olayioye MA, Hausser A

Mol Biol Cell. 2013;24(3):222-33

Nck recruitment to the TCR required for ZAP70 activation during thymic development

Borroto A, Arellano I, Dopfer EP, Prouza M, Suchànek M, Fuentes M, Orfao A, Schamel WW, Alarcón B.

J Immunol. 2013;190(3):1103-12

Novel gravimetric measurement technique for quantitative volume calibration in the sub-microliter range

Liang D, Steinert C, Bammesberger S, Tanguy L, Ernst A, Zengerle R, Koltay P

Meas. Sci. Technol. 24 (2013) 025301 (10pp)

Molecular understanding of the slit diaphragm

Grahammer F, Schell C, Huber TB.

Pediatr Nephrol. 2012 Dec 12. [Epub ahead of print]

Deletion of cysteine cathepsins B or L yields differential impacts on murine skin proteome and degradome

Tholen S, Biniossek ML, Gansz M, Gomez-Auli A, Werner F, Noel A, Kizhakkedathu JN, Boerries M, Busch H, Reinheckel T, Schilling O.

Mol Cell Proteomics. 2012 Dec 10. [Epub ahead of print]

Mitochondrial outer membrane proteome of Trypanosoma brucei reveals novel factors required to maintain mitochondrial morphology.

Niemann M, Wiese S, Mani J, Chanfon A, Jackson C, Meisinger C, Warscheid B, Schneider A.

Mol Cell Proteomics. 2013;12(2):515-28

Increasing the dynamic control space of mammalian transcription devices by combinatorial assembly of homologous regulatory elements from different bacterial species

Bacchus W, Weber W, Fussenegger M.

Metab Eng. 2013;15;144–150

Centrifugal gas-phase transition magnetophoresis (GTM) - a generic method for automation of magnetic bead based assays on the centrifugal microfluidic platform and application to DNA purification

Strohmeier O, Emperle A, Roth G, Mark D, Zengerle R, von Stetten F.

Lab Chip. 2013; 13(1):146-55

Synthesis and characterization of a stimulus-responsive l-ornithine-degrading hydrogel

Geraths C, Eichstädter L, Gübeli RJ, Christen EH, Friedrich C, Weber W.

J Control Release. 2013;165(1):38-43

GABA(B) receptor-mediated presynaptic inhibition reverses inter-columnar covariability of synaptic actions by intracortical axons in the rat barrel cortex

Sato H, Toyoda H, Saito M, Kobayashi M, Althof D, Kulik A, Kang Y.

Eur J Neurosci. 2013;37(2):190-202

Leukocyte enrichment based on a modified pinched flow fractionation approach

Cupelli C, Borchardt T, Steiner T, Paust N, Zengerle R, Santer M

Microfluid Nanofluid 2012 Oct 8, DOI 10.1007/s10404-012-1073-9

The C-terminal helix of Bcl-x(L) mediates Bax retrotranslocation from the mitochondria

Todt F, Cakir Z, Reichenbach F, Youle RJ, Edlich F.

Cell Death Differ. 2012 Oct 19 [Epub ahead of print]

MeDIP coupled with a promoter tiling array as a platform to investigate global DNA methylation patterns in AML cells.

Yalcin A, Kreutz C, Pfeifer D, Abdelkarim M, Klaus G, Timmer J, Lübbert M, Hackanson B.

Leuk Res. 2013;37(1):102-11

Gab2 signaling in chronic myeloid leukemia cells confers resistance to multiple Bcr-Abl inhibitors

Wöhrle FU, Halbach S, Aumann K, Schwemmers S, Braun S, Auberger P, Schramek D, Penninger JM, Laßmann S, Werner M, Waller CF, Pahl HL, Zeiser R, Daly RJ, Brummer T.

Leukemia. 2013; 27(1):118-29