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EMBL Interdisciplinary, International and Intersectorial Postdocs

Publicaciones

Structural Basis for Draxin-Modulated Axon Guidance and Fasciculation by Netrin-1 through DCC

Autores: Ying Liu, Tuhin Bhowmick, Yiqiong Liu, Xuefan Gao, Haydyn D.T. Mertens, Dmitri I. Svergun, Junyu Xiao, Yan Zhang, Jia-huai Wang, Rob Meijers
Publicado en: Neuron, Edición 97/6, 2018, Página(s) 1261-1267.e4, ISSN 0896-6273
Editor: Cell Press
DOI: 10.1016/j.neuron.2018.02.010

Control of mechanical pain hypersensitivity in mice through ligand-targeted photoablation of TrkB-positive sensory neurons

Autores: Rahul Dhandapani, Cynthia Mary Arokiaraj, Francisco J. Taberner, Paola Pacifico, Sruthi Raja, Linda Nocchi, Carla Portulano, Federica Franciosa, Mariano Maffei, Ahmad Fawzi Hussain, Fernanda de Castro Reis, Luc Reymond, Emerald Perlas, Simone Garcovich, Stefan Barth, Kai Johnsson, Stefan G. Lechner, Paul A. Heppenstall
Publicado en: Nature Communications, Edición 9/1, 2018, Página(s) 1640, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-018-04049-3

Topology and enzymatic properties of a canonical Polycomb repressive complex 1 isoform

Autores: Matteo Colombo, Ombeline Pessey, Marco Marcia
Publicado en: FEBS Letters, Edición 593/14, 2019, Página(s) 1837-1848, ISSN 0014-5793
Editor: Elsevier BV
DOI: 10.1002/1873-3468.13442

Genomic Rewiring of SOX2 Chromatin Interaction Network during Differentiation of ESCs to Postmitotic Neurons

Autores: Daria Bunina, Nade Abazova, Nichole Diaz, Kyung-Min Noh, Jeroen Krijgsveld, Judith B. Zaugg
Publicado en: Cell Systems, Edición 10/6, 2020, Página(s) 480-494.e8, ISSN 2405-4712
Editor: Cell Press
DOI: 10.1016/j.cels.2020.05.003

Properties of structural variants and short tandem repeats associated with gene expression and complex traits

Autores: David Jakubosky, Matteo D’Antonio, Marc Jan Bonder, Craig Smail, Margaret K. R. Donovan, William W. Young Greenwald, Hiroko Matsui, Agnieszka D’Antonio-Chronowska, Oliver Stegle, Erin N. Smith, Stephen B. Montgomery, Christopher DeBoever, Kelly A. Frazer
Publicado en: Nature Communications, Edición 11/1, 2020, Página(s) 2927, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-16482-4

Real-time 3D single-molecule localization using experimental point spread functions

Autores: Yiming Li, Markus Mund, Philipp Hoess, Joran Deschamps, Ulf Matti, Bianca Nijmeijer, Vilma Jimenez Sabinina, Jan Ellenberg, Ingmar Schoen, Jonas Ries
Publicado en: Nature Methods, Edición 15/5, 2018, Página(s) 367-369, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/nmeth.4661

Lumen Expansion Facilitates Epiblast-Primitive Endoderm Fate Specification during Mouse Blastocyst Formation

Autores: Allyson Quinn Ryan, Chii Jou Chan, François Graner, Takashi Hiiragi
Publicado en: Developmental Cell, Edición 51/6, 2019, Página(s) 684-697.e4, ISSN 1534-5807
Editor: Cell Press
DOI: 10.1016/j.devcel.2019.10.011

A Tug-of-War between Cell Shape and Polarity Controls Division Orientation to Ensure Robust Patterning in the Mouse Blastocyst

Autores: Ritsuya Niwayama, Prachiti Moghe, Yan-Jun Liu, Dimitri Fabrèges, Frank Buchholz, Matthieu Piel, Takashi Hiiragi
Publicado en: Developmental Cell, Edición 51/5, 2019, Página(s) 564-574.e6, ISSN 1534-5807
Editor: Cell Press
DOI: 10.1016/j.devcel.2019.10.012

Nanoscale subcellular architecture revealed by multicolor three-dimensional salvaged fluorescence imaging

Autores: Yongdeng Zhang, Lena K. Schroeder, Mark D. Lessard, Phylicia Kidd, Jeeyun Chung, Yuanbin Song, Lorena Benedetti, Yiming Li, Jonas Ries, Jonathan B. Grimm, Luke D. Lavis, Pietro De Camilli, James E. Rothman, David Baddeley, Joerg Bewersdorf
Publicado en: Nature Methods, Edición 17/2, 2020, Página(s) 225-231, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/s41592-019-0676-4

Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow

Autores: Olga Ponomarova 1 , Natalia Gabrielli 1 , Daniel C Sévin 2 , Michael Mülleder 3 , Katharina Zirngibl 1 , Katsiaryna Bulyha 1 , Sergej Andrejev 1 , Eleni Kafkia 1 , Athanasios Typas 1 , Uwe Sauer 2 , Markus Ralser 3 , Kiran Raosaheb Patil
Publicado en: Cell System, Edición 2017 Oct 25;5(4):345-357.e6. doi: 10.1016/j.cels.2017.09.002. Epub 2017 Sep 27., 2017, Página(s) 2017 Oct 25;5(4):345-357.e6. doi: 10.1016/j.cels.2017.09.002. Epub 2017 Sep 27., ISSN 2405-4720
Editor: Elsevier
DOI: 10.1016/j.cels.2017.09.002

Depth-dependent PSF calibration and aberration correction for 3D single-molecule localization

Autores: Yiming Li, Yu-Le Wu, Philipp Hoess, Markus Mund, Jonas Ries
Publicado en: Biomedical Optics Express, Edición 10/6, 2019, Página(s) 2708, ISSN 2156-7085
Editor: The Optical Society
DOI: 10.1364/boe.10.002708

Proteasomes tether to two distinct sites at the nuclear pore complex.

Autores: Sahradha Albert,a Miroslava Schaffer,a Florian Beck,a Shyamal Mosalaganti,b Shoh Asano,a,1 Henry F. Thomas,a Jürgen M. Plitzko,a Martin Beck,b Wolfgang Baumeister,a,2 and Benjamin D. Engela, Beck M2, Baumeister W3, Benjamin D Engel Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany; baumeist@biochem.mpg.de baumeist@biochem.mpg.de
Publicado en: Proceedings of the National Academy of Sciences of the United States of America, Edición 114(52):13726-13731, 2017, Página(s) 114(52):13726-13731, ISSN 0027-8424
Editor: National Academy of Sciences
DOI: 10.1073/pnas.1716305114

A General Small-Angle X-ray Scattering-Based Screening Protocol Validated for Protein-RNA Interactions

Autores: Chen PC1, Masiewicz P1, Rybin V1, Svergun D2, Hennig J1
Publicado en: ACS Combinataorial Science, Edición 23 Mar 2018, 2018, Página(s) 20(4):197-202, ISSN 2156-8944
Editor: American Chemical Society
DOI: 10.1021/acscombsci.8b00007

Second-Shell Basic Residues Expand the Two-Metal-Ion Architecture of DNA and RNA Processing Enzymes

Autores: Vito Genna,1,4 Matteo Colombo,2,4 Marco De Vivo,1,3,* and Marco Marcia2,5,**
Publicado en: Structure, Edición 2018 Jan 2; 26(1): 40–50.e2., 2018, Página(s) 2018 Jan 2; 26(1): 40–50.e2., ISSN 0969-2126
Editor: Elsevier
DOI: 10.1016/j.str.2017.11.008

Structural and functional characterization of the severe fever with thrombocytopenia syndrome virus L protein

Autores: Dominik Vogel, Sigurdur Rafn Thorkelsson, Emmanuelle R J Quemin, Kristina Meier, Tomas Kouba, Nadja Gogrefe, Carola Busch, Sophia Reindl, Stephan Günther, Stephen Cusack, Kay Grünewald, Maria Rosenthal
Publicado en: Nucleic Acids Research, Edición 48/10, 2020, Página(s) 5749-5765, ISSN 0305-1048
Editor: Oxford University Press
DOI: 10.1093/nar/gkaa253

Debugging Eukaryotic Genetic Code Expansion for Site-Specific Click-PAINT Super-Resolution Microscopy

Autores: Ivana Nikić, Gemma Estrada Girona, Jun Hee Kang, Giulia Paci, Sofya Mikhaleva, Christine Koehler, Nataliia V. Shymanska, Camilla Ventura Santos, Daniel Spitz, Edward A. Lemke
Publicado en: Angewandte Chemie International Edition, Edición 55/52, 2016, Página(s) 16172-16176, ISSN 1433-7851
Editor: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201608284

Molecular architecture of the inner ring scaffold of the human nuclear pore complex

Autores: J. Kosinski, S. Mosalaganti, A. von Appen, R. Teimer, A. L. DiGuilio, W. Wan, K. H. Bui, W. J. H. Hagen, J. A. G. Briggs, J. S. Glavy, E. Hurt, M. Beck
Publicado en: Science, Edición 352/6283, 2016, Página(s) 363-365, ISSN 0036-8075
Editor: American Association for the Advancement of Science
DOI: 10.1126/science.aaf0643

Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress

Autores: Ye Zhou, Panagiotis L. Kastritis, Shannon E. Dougherty, Jonathan Bouvette, Allen L. Hsu, Laura Burbaum, Shyamal Mosalaganti, Stefan Pfeffer, Wim J. H. Hagen, Friedrich Förster, Mario J. Borgnia, Christine Vogel, Martin Beck, Alberto Bartesaghi, Gustavo M. Silva
Publicado en: Proceedings of the National Academy of Sciences, Edición 117/36, 2020, Página(s) 22157-22166, ISSN 0027-8424
Editor: National Academy of Sciences
DOI: 10.1073/pnas.2005301117

In situ architecture of the algal nuclear pore complex

Autores: Shyamal Mosalaganti, Jan Kosinski, Sahradha Albert, Miroslava Schaffer, Daniela Strenkert, Patrice A. Salomé, Sabeeha S. Merchant, Jürgen M. Plitzko, Wolfgang Baumeister, Benjamin D. Engel, Martin Beck
Publicado en: Nature Communications, Edición 9/1, 2018, Página(s) 2361, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-018-04739-y

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

Autores: Anna S. E. Cuomo, Daniel D. Seaton, Davis J. McCarthy, Iker Martinez, Marc Jan Bonder, Jose Garcia-Bernardo, Shradha Amatya, Pedro Madrigal, Abigail Isaacson, Florian Buettner, Andrew Knights, Kedar Nath Natarajan, Ludovic Vallier, John C. Marioni, Mariya Chhatriwala, Oliver Stegle
Publicado en: Nature Communications, Edición 11/1, 2020, Página(s) 810, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-14457-z

Nuclear pores as versatile reference standards for quantitative superresolution microscopy

Autores: Jervis Vermal Thevathasan, Maurice Kahnwald, Konstanty Cieśliński, Philipp Hoess, Sudheer Kumar Peneti, Manuel Reitberger, Daniel Heid, Krishna Chaitanya Kasuba, Sarah Janice Hoerner, Yiming Li, Yu-Le Wu, Markus Mund, Ulf Matti, Pedro Matos Pereira, Ricardo Henriques, Bianca Nijmeijer, Moritz Kueblbeck, Vilma Jimenez Sabinina, Jan Ellenberg, Jonas Ries
Publicado en: Nature Methods, Edición 16/10, 2019, Página(s) 1045-1053, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/s41592-019-0574-9

Population-scale proteome variation in human induced pluripotent stem cells

Autores: Bogdan Andrei Mirauta, Daniel D Seaton, Dalila Bensaddek, Alejandro Brenes, Marc Jan Bonder, Helena Kilpinen, Chukwuma A Agu, Alex Alderton, Petr Danecek, Rachel Denton, Richard Durbin, Daniel J Gaffney, Angela Goncalves, Reena Halai, Sarah Harper, Christopher M Kirton, Anja Kolb-Kokocinski, Andreas Leha, Shane A McCarthy, Yasin Memari, Minal Patel, Ewan Birney, Francesco Paolo Casale, Laura Clark
Publicado en: eLife, Edición 9, 2020, Página(s) e57390, ISSN 2050-084X
Editor: eLife Sciences Publications
DOI: 10.7554/elife.57390

Ab Initio Prediction of NMR Spin Relaxation Parameters from Molecular Dynamics Simulations

Autores: Po-chia Chen, Maggy Hologne, Olivier Walker, Janosch Hennig
Publicado en: Journal of Chemical Theory and Computation, Edición 14/2, 2018, Página(s) 1009-1019, ISSN 1549-9618
Editor: American Chemical Society
DOI: 10.1021/acs.jctc.7b00750

The role of small-angle scattering in structure-based screening applications

Autores: Po-chia Chen, Janosch Hennig
Publicado en: Biophysical Reviews, Edición 10/5, 2018, Página(s) 1295-1310, ISSN 1867-2450
Editor: Springer Verlag
DOI: 10.1007/s12551-018-0464-x

Revisiting the role of metabolism during development

Autores: Hidenobu Miyazawa, Alexander Aulehla
Publicado en: Development, Edición 145/19, 2018, Página(s) dev131110, ISSN 0950-1991
Editor: The Company of Biologists Ltd.
DOI: 10.1242/dev.131110

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