Publications 2017

Publications 2016 Publications 2015 Publications 2014

Disclaimer: This page includes all publications by NCCR member labs.

M. Zavolan and A. Kanitz (2017)
RNA splicing and its connection with other regulatory layers in somatic cell reprogramming
Curr Opin Cell Biol, 52, 8-13
Pubmed(external link)

W. Ahmed and J. Lingner (2017)
Impact of oxidative stress on telomere biology
Differentiation, 99, 21-27
Pubmed(external link)

M. Clerici, M. Faini, R. Aebersold and M. Jinek (2017)
Structural insights into the assembly and polyA signal recognition mechanism of the human CPSF complex
Elife, 6, e33111
Pubmed(external link)

M. Vlot, J. Houkes, S. J. A. Lochs, D. C. Swarts, P. Zheng, T. Kunne, P. Mohanraju, C. Anders, M. Jinek, J. van der Oost, M. J. Dickman and S. J. J. Brouns (2017)
Bacteriophage DNA glucosylation impairs target DNA binding by type I and II but not by type V CRISPR-Cas effector complexes
Nucleic Acids Res, Epub ahead of print
Pubmed(external link)

K. Essig, D. Hu, J. C. Guimaraes, D. Alterauge, S. Edelmann, T. Raj, J. Kranich, G. Behrens, A. Heiseke, S. Floess, J. Klein, A. Maiser, S. Marschall, M. Hrabe de Angelis, H. Leonhardt, C. F. Calkhoven, E. Noessner, T. Brocker, J. Huehn, A. B. Krug, M. Zavolan, D. Baumjohann and V. Heissmeyer (2017)
Roquin Suppresses the PI3K-mTOR Signaling Pathway to Inhibit T Helper Cell Differentiation and Conversion of Treg to Tfr Cells
Immunity, 47 (6), 1067-1082 e12
Pubmed(external link)

E. Sonnleitner, A. Wulf, S. Campagne, X. Y. Pei, M. T. Wolfinger, G. Forlani, K. Prindl, L. Abdou, A. Resch, F. H. Allain, B. F. Luisi, H. Urlaub and U. Blasi (2017)
Interplay between the catabolite repression control protein Crc, Hfq and RNA in Hfq-dependent translational regulation in Pseudomonas aeruginosa
Nucleic Acids Res, Epub ahead of print
Pubmed(external link)

Y. Guri, M. Colombi, E. Dazert, S. K. Hindupur, J. Roszik, S. Moes, P. Jenoe, M. H. Heim, I. Riezman, H. Riezman and M. N. Hall (2017)
mTORC2 Promotes Tumorigenesis via Lipid Synthesis
Cancer Cell, 32 (6), 807-823 e12
Pubmed(external link)

Z. T. Neeb and M. Nowacki (2017)
RNA-mediated transgenerational inheritance in ciliates and plants
Chromosoma, Epub ahead of print
Pubmed(external link)

S. Berry, S. Rosa, M. Howard, M. Bühler and C. Dean (2017)
Disruption of an RNA-binding hinge region abolishes LHP1-mediated epigenetic repression
Genes Dev, 31 (21), 2115-2120
Pubmed(external link)

F. Tang, P. Zhang, P. Ye, C. A. Lazarski, Q. Wu, I. L. Bergin, T. P. Bender, M. N. Hall, Y. Cui, L. Zhang, T. Jiang, Y. Liu and P. Zheng (2017)
A population of innate myelolymphoblastoid effector cell expanded by inactivation of mTOR complex 1 in mice
Elife, 6, e32497
Pubmed(external link)

M. Zavolan and B. R. Graveley (2017)
RNAs: dynamic and mutable
Genome Biol, 18 (1), 226
Pubmed(external link)

S. E. Allen and M. Nowacki (2017)
Necessity Is the Mother of Invention: Ciliates, Transposons, and Transgenerational Inheritance
Trends Genet, 33 (3), 197-207
Pubmed(external link)

S. Reber, J. Mechtersheimer, S. Nasif, J. A. Benitez, M. Colombo, M. Domanski, D. Jutzi, E. Hedlund and M. D. Ruepp (2017)
CRISPR-Trap: A clean approach for the generation of gene knockouts and gene replacements in human cells
Mol Biol Cell, Epub ahead of print
Pubmed(external link)

M. Sivaramakrishnan, K. D. McCarthy, S. Campagne, S. Huber, S. Meier, A. Augustin, T. Heckel, H. Meistermann, M. N. Hug, P. Birrer, A. Moursy, S. Khawaja, R. Schmucki, N. Berntenis, N. Giroud, S. Golling, M. Tzouros, B. Banfai, G. Duran-Pacheco, J. Lamerz, Y. Hsiu Liu, T. Luebbers, H. Ratni, M. Ebeling, A. Cléry, S. Paushkin, A. R. Krainer, F. H. Allain and F. Metzger (2017)
Binding to SMN2 pre-mRNA-protein complex elicits specificity for small molecule splicing modifiers
Nat Commun, 8 (1), 1476
Pubmed(external link)

F. Voigt, J. Eglinger and J. A. Chao (2018)
Detection of the First Round of Translation: The TRICK Assay
Methods Mol Biol, 1649, 373-384
Pubmed(external link)

C. Garcia-Doval and M. Jinek (2017)
Molecular architectures and mechanisms of Class 2 CRISPR-associated nucleases
Curr Opin Struct Biol, 47, 157-166
Pubmed(external link)

J. Lagarde, B. Uszczynska-Ratajczak, S. Carbonell, S. Perez-Lluch, A. Abad, C. Davis, T. R. Gingeras, A. Frankish, J. Harrow, R. Guigo and R. Johnson (2017)
High-throughput annotation of full-length long noncoding RNAs with capture long-read sequencing
Nat Genet, 49 (12), 1731-1740
Pubmed(external link)

N. Bozadjieva, M. Blandino-Rosano, J. Chase, X. Q. Dai, K. Cummings, J. Gimeno, D. Dean, A. C. Powers, G. K. Gittes, M. A. Ruegg, M. N. Hall, P. E. MacDonald and E. Bernal-Mizrachi (2017)
Loss of mTORC1 signaling alters pancreatic alpha cell mass and impairs glucagon secretion
J Clin Invest, Epub ahead of print
Pubmed(external link)

M. E. Hughes, K. C. Abruzzi, R. Allada, R. Anafi, A. B. Arpat, G. Asher, P. Baldi, C. de Bekker, D. Bell-Pedersen, J. Blau, S. Brown, M. F. Ceriani, Z. Chen, J. C. Chiu, J. Cox, A. M. Crowell, J. P. DeBruyne, D. J. Dijk, L. DiTacchio, F. J. Doyle, G. E. Duffield, J. C. Dunlap, K. Eckel-Mahan, K. A. Esser, G. A. FitzGerald, D. B. Forger, L. J. Francey, Y. H. Fu, F. Gachon, D. Gatfield, P. de Goede, S. S. Golden, C. Green, J. Harer, S. Harmer, J. Haspel, M. H. Hastings, H. Herzel, E. D. Herzog, C. Hoffmann, C. Hong, J. J. Hughey, J. M. Hurley, H. O. de la Iglesia, C. Johnson, S. A. Kay, N. Koike, K. Kornacker, A. Kramer, K. Lamia, T. Leise, S. A. Lewis, J. Li, X. Li, A. C. Liu, J. J. Loros, T. A. Martino, J. S. Menet, M. Merrow, A. J. Millar, T. Mockler, F. Naef, E. Nagoshi, M. N. Nitabach, M. Olmedo, D. A. Nusinow, L. J. Ptacek, D. Rand, A. B. Reddy, M. S. Robles, T. Roenneberg, M. Rosbash, M. D. Ruben, S. S. C. Rund, A. Sancar, P. Sassone-Corsi, A. Sehgal, S. Sherrill-Mix, D. J. Skene, K. F. Storch, J. S. Takahashi, H. R. Ueda, H. Wang, C. Weitz, P. O. Westermark, H. Wijnen, Y. Xu, G. Wu, S. H. Yoo, M. Young, E. E. Zhang, T. Zielinski and J. B. Hogenesch (2017)
Guidelines for Genome-Scale Analysis of Biological Rhythms
J Biol Rhythms, 32 (5), 380-393
Pubmed(external link)

C. Foglieni, S. Papin, A. Salvade, T. Afroz, S. Pinton, G. Pedrioli, G. Ulrich, M. Polymenidou and P. Paganetti (2017)
Split GFP technologies to structurally characterize and quantify functional biomolecular interactions of FTD-related proteins
Sci Rep, 7 (1), 14013
Pubmed(external link)

M. I. Linder, M. Kohler, P. Boersema, M. Weberruss, C. Wandke, J. Marino, C. Ashiono, P. Picotti, W. Antonin and U. Kutay (2017)
Mitotic Disassembly of Nuclear Pore Complexes Involves CDK1- and PLK1-Mediated Phosphorylation of Key Interconnecting Nucleoporins
Dev Cell, 43 (2), 141-156 e7
Pubmed(external link)

I. Horvathova, F. Voigt, A. V. Kotrys, Y. Zhan, C. G. Artus-Revel, J. Eglinger, M. B. Stadler, L. Giorgetti and J. A. Chao (2017)
The Dynamics of mRNA Turnover Revealed by Single-Molecule Imaging in Single Cells
Mol Cell, 68 (3), 615-625 e9
Pubmed(external link)

G. Martin, R. Schmidt, A. J. Gruber, S. Ghosh, W. Keller and M. Zavolan (2017)
3' End Sequencing Library Preparation with A-seq2
J Vis Exp, 128
Pubmed(external link)

C. Gmeiner, G. Dorn, F. H. T. Allain, G. Jeschke and M. Yulikov (2017)
Spin labelling for integrative structure modelling: a case study of the polypyrimidine-tract binding protein 1 domains in complexes with short RNAs
Phys Chem Chem Phys, 19 (41), 28360-28380
Pubmed(external link)

M. N. Wojtas, R. R. Pandey, M. Mendel, D. Homolka, R. Sachidanandam and R. S. Pillai (2017)
Regulation of m6A Transcripts by the 3'to 5' RNA Helicase YTHDC2 Is Essential for a Successful Meiotic Program in the Mammalian Germline
Mol Cell, 68 (2), 374-387 e12
Pubmed(external link)

D. Spies, P. F. Renz, T. A. Beyer and C. Ciaudo (2017)
Comparative analysis of differential gene expression tools for RNA sequencing time course data
Brief Bioinform, Epub ahead of print
Pubmed(external link)

T. S. Miki, S. H. Carl and H. Grosshans (2017)
Two distinct transcription termination modes dictated by promoters
Genes Dev, 31 (18), 1870-1879
Pubmed(external link)

J. Singer, H. J. Ruscheweyh, A. L. Hofmann, T. Thurnherr, F. Singer, N. C. Toussaint, C. K. Y. Ng, S. Piscuoglio, C. Beisel, G. Christofori, R. Dummer, M. N. Hall, W. Krek, M. Levesque, M. G. Manz, H. Moch, A. Papassotiropoulos, D. J. Stekhoven, P. Wild, T. Wust, B. Rinn and N. Beerenwinkel (2017)
NGS-pipe: a flexible, easily extendable, and highly configurable framework for NGS analysis
Bioinformatics, Epub ahead of print
Pubmed(external link)

M. P. LaPierre and M. Stoffel (2017)
MicroRNAs as stress regulators in pancreatic beta cells and diabetes
Mol Metab, 6 (9), 1010-1023
Pubmed(external link)

N. Diarra Dit Konté, M. Krepl, F. F. Damberger, N. Ripin, O. Duss, J. Šponer and F. H. Allain (2017)
Aromatic side-chain conformational switch on the surface of the RNA Recognition Motif enables RNA discrimination
Nat Commun, 8 (1), 654
Pubmed(external link)

O. Mühlemann and E. D. Karousis (2017)
New functions in translation termination uncovered for NMD factor UPF3B
EMBO J, 36 (20), 2928-2930
Pubmed(external link)

C. Gmeiner, D. Klose, E. Mileo, V. Belle, S. R. A. Marque, G. Dorn, F. H. T. Allain, B. Guigliarelli, G. Jeschke and M. Yulikov (2017)
Orthogonal Tyrosine and Cysteine Site-Directed Spin Labeling for Dipolar Pulse EPR Spectroscopy on Proteins
J Phys Chem Lett,8 (19), 4852-4857
Pubmed(external link)

O. Niewoehner and M. Jinek (2017)
Specialized Weaponry: How a Type III-A CRISPR-Cas System Excels at Combating Phages
Cell Host Microbe, 22 (3), 258-259
Pubmed(external link)

M. N. Hall (2017)
An Amazing Turn of Events
Cell, 171 (1), 18-22
Pubmed(external link)

F. Item, S. Wueest, V. Lemos, S. Stein, F. C. Lucchini, R. Denzler, M. C. Fisser, T. D. Challa, E. Pirinen, Y. Kim, S. Hemmi, E. Gulbins, A. Gross, L. A. O'Reilly, M. Stoffel, J. Auwerx and D. Konrad (2017)
Fas cell surface death receptor controls hepatic lipid metabolism by regulating mitochondrial function
Nat Commun, 8 (1), 480
Pubmed(external link)

N. Mittal, J. C. Guimaraes, T. Gross, A. Schmidt, A. Vina-Vilaseca, D. D. Nedialkova, F. Aeschimann, S. A. Leidel, A. Spang and M. Zavolan (2017)
The Gcn4 transcription factor reduces protein synthesis capacity and extends yeast lifespan
Nat Commun, 8 (1), 457
Pubmed(external link)

S. Nasif, L. Contu and O. Mühlemann (2017)
Beyond quality control: The role of nonsense-mediated mRNA decay (NMD) in regulating gene expression
Semin Cell Dev Biol, Epub ahead of print
Pubmed(external link)

M. Niemann, A. Harsman, J. Mani, C. D. Peikert, S. Oeljeklaus, B. Warscheid, R. Wagner and A. Schneider (2017)
tRNAs and proteins use the same import channel for translocation across the mitochondrial outer membrane of trypanosomes
Proc Natl Acad Sci U S A, 114 (37), E7679-E7687
Pubmed(external link)

C. Wenger, S. Oeljeklaus, B. Warscheid, A. Schneider and A. Harsman (2017)
A trypanosomal orthologue of an intermembrane space chaperone has a non-canonical function in biogenesis of the single mitochondrial inner membrane protein translocase
PLoS Pathog, 13 (8), e1006550
Pubmed(external link)

R. R. Pandey, D. Homolka, K. M. Chen, R. Sachidanandam, M. O. Fauvarque and R. S. Pillai (2017)
Recruitment of Armitage and Yb to a transcript triggers its phased processing into primary piRNAs in Drosophila ovaries
PLoS Genet, 13 (8), e1006956
Pubmed(external link)

S. Pawar, R. Ungricht, P. Tiefenboeck, J. C. Leroux and U. Kutay (2017)
Efficient protein targeting to the inner nuclear membrane requires atlastin-dependent maintenance of ER topology
Elife, 6:e28202
Pubmed(external link)

S. Omidi, M. Zavolan, M. Pachkov, J. Breda, S. Berger and E. van Nimwegen (2017)
Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensors
PLoS Comput Biol, 13 (7), e1005176
Pubmed(external link)

M. Menzi, B. Wild, U. Pradere, A. Brunschweiger, A. L. Malinowska, H. L. Lightfoot and J. Hall (2017)
Towards improved oligonucleotide therapeutics through faster target binding kinetics
Chemistry, 23 (57), 14221-14230
Pubmed(external link)

M. Weisser, T. Schäfer, M. Leibundgut, D. Böhringer, C. H. S. Aylett and N. Ban (2017)
Structural and Functional Insights into Human Re-initiation Complexes
Mol Cell, 67 (3), 447-456 e7
Pubmed(external link)

O. Niewoehner, C. Garcia-Doval, J. T. Rostøl, C. Berk, F. Schwede, L. Bigler, J. Hall, L. A. Marraffini and M. Jinek (2017)
Type III CRISPR-Cas systems produce cyclic oligoadenylate second messengers
Nature, 548 (7669), 543-548
Pubmed(external link)

D. I. Furrer, E. C. Swart, M. F. Kraft, P. Y. Sandoval and M. Nowacki (2017)
Two Sets of Piwi Proteins Are Involved in Distinct sRNA Pathways Leading to Elimination of Germline-Specific DNA
Cell Rep, 20 (2), 505-520
Pubmed(external link)

M. Blandino-Rosano, R. Barbaresso, M. Jimenez-Palomares, N. Bozadjieva, J. P. Werneck-de-Castro, M. Hatanaka, R. G. Mirmira, N. Sonenberg, M. Liu, M. A. Rüegg, M. N. Hall and E. Bernal-Mizrachi (2017)
Loss of mTORC1 signalling impairs beta-cell homeostasis and insulin processing
Nat Commun, 8, 16014
Pubmed(external link)

J. Hentschel, C. Burnside, I. Mignot, M. Leibundgut, D. Boehringer and N. Ban (2017)
The Complete Structure of the Mycobacterium smegmatis 70S Ribosome
Cell Rep, 20 (1), 149-160
Pubmed(external link)

T. Afroz, E. M. Hock, P. Ernst, C. Foglieni, M. Jambeau, L. A. B. Gilhespy, F. Laferriere, Z. Maniecka, A. Plückthun, P. Mittl, P. Paganetti, F. H. T. Allain and M. Polymenidou (2017)
Functional and dynamic polymerization of the ALS-linked protein TDP-43 antagonizes its pathologic aggregation
Nat Commun, 8 (1), 45
Pubmed(external link)

D. Benjamin and M. N. Hall (2017)
mTORC1 Controls Synthesis of Its Activator GTP
Cell Rep, 19 (13), 2643-2644
Pubmed(external link)

M. Schubert, T. Aeschbacher, M. Zierke, M. Smiesko, M. Collot, J. M. Mallet, B. Ernst and F. H. Allain (2017)
A secondary structure element present in a wide range of fucosylated glycoepitopes
Chemistry, 23 (48), 11598-11610
Pubmed(external link)

G. Palermo, Y. Miao, R. C. Walker, M. Jinek and J. A. McCammon (2017)
CRISPR-Cas9 conformational activation as elucidated from enhanced molecular simulations
Proc Natl Acad Sci U S A, Epub ahead of print
Pubmed(external link)

I. Beusch, P. Barraud, A. Moursy, A. Cléry and F. H. Allain (2017)
Tandem hnRNP A1 RNA recognition motifs act in concert to repress the splicing of survival motor neuron exon 7
Elife, 6:e25736
Pubmed(external link)

V. Flury, P. R. Georgescu, V. Iesmantavicius, Y. Shimada, T. Kuzdere, S. Braun and M. Bühler (2017)
The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1
Mol Cell, 67 (2), 294-307 e9
Pubmed(external link)

S. E. Allen, I. Hug, S. Pabian, I. Rzeszutek, C. Hoehener and M. Nowacki (2017)
Circular Concatemers of Ultra-Short DNA Segments Produce Regulatory RNAs
Cell, 168(6), 990-999 e7
Pubmed(external link)
Link to Press Release(external link)

E. Sasaki, D. Böhringer, M. van de Waterbeemd, M. Leibundgut, R. Zschoche, A. J. Heck, N. Ban and D. Hilvert (2017)
Structure and assembly of scalable porous protein cages
Nat Commun, 8, 14663
Pubmed(external link)

D. Cirera-Salinas, M. Bodak and C. Ciaudo (2017)
Versatility of DGCR8 controls stem cell fate
Cell Cycle, 16 (8), 729-730
Pubmed(external link)

A. Lanzos, J. Carlevaro-Fita, L. Mularoni, F. Reverter, E. Palumbo, R. Guigo and R. Johnson (2017)
Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features
Sci Rep, 7, 41544
Pubmed(external link)

B. Malone, I. Atanassov, F. Aeschimann, X. Li, H. Grosshans and C. Dieterich (2017)
Bayesian prediction of RNA translation from ribosome profiling
Nucleic Acids Res, 45 (6), 2960-2972
Pubmed(external link)

G. Balistreri, C. Bognanni and O. Mühlemann (2017)
Virus Escape and Manipulation of Cellular Nonsense-Mediated mRNA Decay
Viruses, 9 (1)
Pubmed(external link)

F. Piccinini, T. Balassa, A. Szkalisity, C. Molnar, L. Paavolainen, K. Kujala, K. Buzas, M. Sarazova, V. Pietiainen, U. Kutay, K. Smith and P. Horvath (2017)
Advanced Cell Classifier: User-Friendly Machine-Learning-Based Software for Discovering Phenotypes in High-Content Imaging Data
Cell Syst, 4 (6), 651-655 e5
Pubmed(external link)

R. Ungricht and U. Kutay (2017)
Mechanisms and functions of nuclear envelope remodelling
Nat Rev Mol Cell Biol, 18 (4), 229-245
Pubmed(external link)

M. Bolten, C. Vahlensieck, C. Lipp, M. Leibundgut, N. Ban and E. Weber-Ban (2017)
Depupylase Dop requires Inorganic Phosphate in the Active Site for Catalysis
J Biol Chem, 292 (10), 4044-4053
Pubmed(external link)

M. Bodak, D. Cirera-Salinas, J. Luitz and C. Ciaudo (2017)
The role of RNA interference in stem cell biology: Beyond the mutant phenotypes
J Mol Biol, 429 (10), 1532-1543
Pubmed(external link)

J. M. Wenda, D. Homolka, Z. Yang, P. Spinelli, R. Sachidanandam, R. R. Pandey and R. S. Pillai (2017)
Distinct Roles of RNA Helicases MVH and TDRD9 in PIWI Slicing-Triggered Mammalian piRNA Biogenesis and Function
Dev Cell, 41 (6), 623-637 e9
Pubmed(external link)

V. Castelo-Szekely, A. B. Arpat, P. Janich and D. Gatfield (2017)
Translational contributions to tissue specificity in rhythmic and constitutive gene expression
Genome Biol, 18 (1), 116
Pubmed(external link)

P. Knuckles, S. H. Carl, M. Musheev, C. Niehrs, A. Wenger and M. Bühler (2017)
RNA fate determination through cotranscriptional adenosine methylation and microprocessor binding
Nat Struct Mol Biol, 24 (7), 561-569
Pubmed(external link)

S. Silva, D. Homolka and R. S. Pillai (2017)
Characterization of the mammalian RNA Exonuclease 5/NEF-sp as a testis-specific nuclear 3' to 5' exoribonuclease
RNA,23 (9), 1385-1392
Pubmed(external link)

A. Jomaa, Y. H. Fu, D. Boehringer, M. Leibundgut, S. O. Shan and N. Ban (2017)
Structure of the quaternary complex between SRP, SR, and translocon bound to the translating ribosome
Nat Commun, 8, 15470
Pubmed(external link)

M. Krepl, M. Blatter, A. Cléry, F. F. Damberger, F. H. T. Allain and J. Sponer (2017)
Structural study of the Fox-1 RRM protein hydration reveals a role for key water molecules in RRM-RNA recognition
Nucleic Acids Res, 45 (13), 8046-8063
Pubmed(external link)

C. D. Peikert, J. Mani, M. Morgenstern, S. Käser, B. Knapp, C. Wenger, A. Harsman, S. Oeljeklaus, A. Schneider and B. Warscheid (2017)
Charting organellar importomes by quantitative mass spectrometry
Nat Commun, 8, 15272
Pubmed(external link)

F. Sinturel, A. Gerber, D. Mauvoisin, J. Wang, D. Gatfield, J. J. Stubblefield, C. B. Green, F. Gachon and U. Schibler (2017)
Diurnal Oscillations in Liver Mass and Cell Size Accompany Ribosome Assembly Cycles
Cell, 169 (4), 651-663 e14
Pubmed(external link)

D. C. Swarts, J. van der Oost and M. Jinek (2017)
Structural Basis for Guide RNA Processing and Seed-Dependent DNA Targeting by CRISPR-Cas12a
Mol Cell, 66 (2), 221-233 e4
Pubmed(external link)

Y. Gonskikh and N. Polacek (2017)
Alterations of the translation apparatus during aging and stress response
Mech Ageing Dev, 168, 30-36
Pubmed(external link)

Y. Dimitrova, A. J. Gruber, N. Mittal, S. Ghosh, B. Dimitriades, D. Mathow, W. A. Grandy, G. Christofori and M. Zavolan (2017)
TFAP2A is a component of the ZEB1/2 network that regulates TGFB1-induced epithelial to mesenchymal transition
Biol Direct, 12 (1), 8
Pubmed(external link)

C. Montellese, N. Montel-Lehry, A. K. Henras, U. Kutay, P. E. Gleizes and M. F. O'Donohue (2017)
Poly(A)-specific ribonuclease is a nuclear ribosome biogenesis factor involved in human 18S rRNA maturation
Nucleic Acids Res, 45 (11), 6822-6836
Pubmed(external link)

D. Mas-Ponte, J. Carlevaro-Fita, E. Palumbo, T. Hermoso Pulido, R. Guigo and R. Johnson (2017)
LncATLAS database for subcellular localisation of long noncoding RNAs
RNA, 23 (7), 1080-1087
Pubmed(external link)

A. Vancevska, K. M. Douglass, V. Pfeiffer, S. Manley and J. Lingner (2017)
The telomeric DNA damage response occurs in the absence of chromatin decompaction
Genes Dev, 31 (6), 567-577
Pubmed(external link)

M. Koch, J. Willi, U. Pradère, J. Hall and N. Polacek (2017)
Critical 23S rRNA interactions for macrolide-dependent ribosome stalling on the ErmCL nascent peptide chain
Nucleic Acids Res, 45 (11), 6717-6728
Pubmed(external link)

G. Dorn, A. Leitner, J. Boudet, S. Campagne, C. von Schroetter, A. Moursy, R. Aebersold and F. H. Allain (2017)
Structural modeling of protein-RNA complexes using crosslinking of segmentally isotope-labeled RNA and MS/MS
Nat Methods, 14 (5), 487-490
Pubmed(external link)

B. Samatanga, A. Cléry, P. Barraud, F. H. Allain and I. Jelesarov (2017)
Comparative analyses of the thermodynamic RNA binding signatures of different types of RNA recognition motifs
Nucleic Acids Res, 45 (10), 6037-6050
Pubmed(external link)

J. Yu and C. Ciaudo (2017)
Vector Integration Sites Identification for Gene-Trap Screening in Mammalian Haploid Cells
Sci Rep, 7, 44736
Pubmed(external link)

U. Pradère, F. Halloy and J. Hall (2017)
Chemical synthesis of long RNAs with terminal 5'-phosphate groups
Chemistry, 23 (22), 5210-5213
Pubmed(external link)

A. Cléry, T. J. M. Sohier, T. Welte, A. Langer and F. H. T. Allain (2017)
switchSENSE: A new technology to study protein-RNA interactions
Methods, 118-119, 137-145
Pubmed(external link)

C. Pulido-Quetglas, E. Aparicio-Prat, C. Arnan, T. Polidori, T. Hermoso, E. Palumbo, J. Ponomarenko, R. Guigo and R. Johnson (2017)
Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion
PLoS Comput Biol, 13 (3), e1005341
Pubmed(external link)

J. Y. Tan, A. A. Smith, M. Ferreira da Silva, C. Matthey-Doret, R. Rueedi, R. Sonmez, D. Ding, Z. Kutalik, S. Bergmann and A. C. Marques (2017)
cis-Acting Complex-Trait-Associated lincRNA Expression Correlates with Modulation of Chromosomal Architecture
Cell Rep, 18 (9), 2280-2288
Pubmed(external link)

K. Ahmed, M. P. LaPierre, E. Gasser, R. Denzler, Y. Yang, T. Rulicke, J. Kero, M. Latreille and M. Stoffel (2017)
Loss of microRNA-7a2 induces hypogonadotropic hypogonadism and infertility
J Clin Invest, 127 (3), 1061-1074
Pubmed(external link)

A. Riba, M. Emmenlauer, A. Chen, F. Sigoillot, F. Cong, C. Dehio, J. Jenkins and M. Zavolan (2017)
Explicit Modeling of siRNA-Dependent On- and Off-Target Repression Improves the Interpretation of Screening Results
Cell Syst, 4 (2), 182-193 e4
Pubmed(external link)

H. Leske, S. Hornemann, U. S. Herrmann, C. Zhu, P. Dametto, B. Li, F. Laferriere, M. Polymenidou, P. Pelczar, R. R. Reimann, P. Schwarz, E. J. Rushing, K. Wüthrich and A. Aguzzi (2017)
Protease resistance of infectious prions is suppressed by removal of a single atom in the cellular prion protein
PLoS One, 12 (2), e0170503
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M. M. Slabodnick, J. G. Ruby, S. B. Reiff, E. C. Swart, S. Gosai, S. Prabakaran, E. Witkowska, G. E. Larue, S. Fisher, R. M. Freeman, Jr., J. Gunawardena, W. Chu, N. A. Stover, B. D. Gregory, M. Nowacki, J. Derisi, S. W. Roy, W. F. Marshall and P. Sood (2017)
The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell
Curr Biol, 27 (4), 569-575
Pubmed(external link)

G. Lossaint and J. Lingner (2017)
TZAP or not to zap telomeres
Science, 355 (6325), 578-579
Pubmed(external link)

M. Bodak, D. Cirera-Salinas, J. Yu, R. P. Ngondo and C. Ciaudo (2017)
Dicer, a new regulator of pluripotency exit and LINE-1 elements in mouse embryonic stem cells
FEBS Open Bio, 7 (2), 204-220
Pubmed(external link)

D. E. Whittaker, K. L. Riegman, S. Kasah, C. Mohan, T. Yu, B. P. Sala, H. Hebaishi, A. Caruso, A. C. Marques, C. Michetti, M. E. Smachetti, A. Shah, M. Sabbioni, O. Kulhanci, W. W. Tee, D. Reinberg, M. L. Scattoni, H. Volk, I. McGonnell, F. C. Wardle, C. Fernandes and M. A. Basson (2017)
The chromatin remodeling factor CHD7 controls cerebellar development by regulating reelin expression
J Clin Invest, 127 (3), 874-887
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J. Barandun, F. F. Damberger, C. L. Delley, J. Laederach, F. H. Allain and E. Weber-Ban (2017)
Prokaryotic ubiquitin-like protein remains intrinsically disordered when covalently attached to proteasomal target proteins
BMC Struct Biol, 17 (1), 1
Pubmed(external link)

C. H. Aylett and N. Ban (2017)
Eukaryotic aspects of translation initiation brought into focus
Philos Trans R Soc Lond B Biol Sci, 372, 1716
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M. D. Ruepp, H. Wei, M. Leuenberger, M. Lochner and A. J. Thompson (2017)
The binding orientations of structurally-related ligands can differ; A cautionary note
Neuropharmacology, 119, 48-61
Pubmed(external link)

E. Moroz, S. H. Lee, K. Yamada, F. Halloy, S. Martinez-Montero, H. Jahns, J. Hall, M. J. Damha, B. Castagner and J. C. Leroux (2016)
Carrier-free Gene Silencing by Amphiphilic Nucleic Acid Conjugates in Differentiated Intestinal Cells
Mol Ther Nucleic Acids, 5, e364
Pubmed(external link)

F. Aeschimann, P. Kumari, H. Bartake, D. Gaidatzis, L. Xu, R. Ciosk and H. Grosshans (2017)
LIN41 Post-transcriptionally Silences mRNAs by Two Distinct and Position-Dependent Mechanisms
Mol Cell, 65 (3), 476-489 e4
Pubmed(external link)

J. Bruggisser, S. Käser, J. Mani and A. Schneider (2017)
Biogenesis of a mitochondrial outer membrane protein in Trypanosoma brucei: targeting signal and dependence on an unique biogenesis factor
J Biol Chem, 292 (8), 3400-3410
Pubmed(external link)

D. Cirera-Salinas, J. Yu, M. Bodak, R. P. Ngondo, K. M. Herbert and C. Ciaudo (2017)
Noncanonical function of DGCR8 controls mESC exit from pluripotency
J Cell Biol, 216 (2), 355-366
Pubmed(external link)

A. González and M. N. Hall (2017)
Nutrient sensing and TOR signaling in yeast and mammals
EMBO J, 36 (4), 397-408
Pubmed(external link)

J. Mani, S. Rout, S. Desy and A. Schneider (2017)
Mitochondrial protein import - Functional analysis of the highly diverged Tom22 orthologue of Trypanosoma brucei
Sci Rep, 7, 40738
Pubmed(external link)

J. Barman-Aksözen, P. Ćwiek, V. B. Bansode, F. Koentgen, J. Trüb, P. Pelczar, P. Cinelli, X. Schneider-Yin, D. Schümperli and E. I. Minder (2017)
Modelling the ferrochelatase c.315-48C modifier mutation for erythropoietic protoporphyria (EPP) in mice
Dis Model Mech, 10 (3), 225-233
Pubmed(external link)

A. J. Thompson, S. Metzger, M. Lochner and M. D. Ruepp (2017)
The binding orientation of epibatidine at alpha7 nACh receptors
Neuropharmacology, 116, 421-428
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S. Fitter, M. P. Matthews, S. K. Martin, J. Xie, S. S. Ooi, C. R. Walkley, J. D. Codrington, M. A. Ruegg, M. N. Hall, C. G. Proud, S. Gronthos and A. C. Zannettino (2017)
mTORC1 Plays an Important Role in Skeletal Development by Controlling pre-Osteoblast Differentiation
Mol Cell Biol, 37 (7), e00668-16
Pubmed(external link)

M. Polymenidou and D. W. Cleveland (2017)
Biological Spectrum of Amyotrophic Lateral Sclerosis Prions
Cold Spring Harb Perspect Med, 7 (11)
Pubmed(external link)

R. Gumienny, D. J. Jedlinski, A. Schmidt, F. Gypas, G. Martin, A. Vina-Vilaseca and M. Zavolan (2017)
High-throughput identification of C/D box snoRNA targets with CLIP and RiboMeth-seq
Nucleic Acids Res, 45 (5), 2341-2353
Pubmed(external link)

P. Bieri, M. Leibundgut, M. Saurer, D. Boehringer and N. Ban (2017)
The complete structure of the chloroplast 70S ribosome in complex with translation factor pY
EMBO J, 36 (4), 475-486
Pubmed(external link)

A. Harsman and A. Schneider (2017)
Mitochondrial protein import in trypanosomes - Expect the unexpected
Traffic, 18 (2), 96-109
Pubmed(external link)

M. Li, H. L. Lightfoot, F. Halloy, A. L. Malinowska, C. Berk, A. Behera, D. Schümperli and J. Hall (2017)
Synthesis and cellular activity of stereochemically-pure 2'-O-(2-methoxyethyl)-phosphorothioate oligonucleotides
Chem Commun (Camb), 53 (3), 541-544
Pubmed(external link)

M. Colombo, E. D. Karousis, J. Bourquin, R. Bruggmann and O. Mühlemann (2017)
Transcriptome-wide identification of NMD-targeted human mRNAs reveals extensive redundancy between SMG6- and SMG7-mediated degradation pathways
RNA, 23 (2), 189-201
Pubmed(external link)

M. Feretzaki and J. Lingner (2017)
A practical qPCR approach to detect TERRA, the elusive telomeric repeat-containing RNA
Methods, 114, 39-45
Pubmed(external link)

L. Champion, M. I. Linder and U. Kutay (2017)
Cellular Reorganization during Mitotic Entry
Trends Cell Biol, 27 (1), 26-41
Pubmed(external link)

J. Majerska, S. Redon and J. Lingner (2017)
Quantitative telomeric chromatin isolation protocol for human cells
Methods, 114, 28-38
Pubmed(external link)

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