Works matching AU Rappsilber, Juri

Results: 129

Prosit-XL: enhanced cross-linked peptide identification by fragment intensity prediction to study protein interactions and structures.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-61203-4

By:

Kalhor, Mostafa;
Saylan, Cemil Can;
Picciani, Mario;
Fischer, Lutz;
Schimweg, Falk Boudewijn;
Lapin, Joel;
Rappsilber, Juri;
Wilhelm, Mathias

Publication type:

Article

Modelling protein complexes with crosslinking mass spectrometry and deep learning.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-51771-2

By:

Stahl, Kolja;
Warneke, Robert;
Demann, Lorenz;
Bremenkamp, Rica;
Hormes, Björn;
Brock, Oliver;
Stülke, Jörg;
Rappsilber, Juri

Publication type:

Article

Molecular mechanism of IKK catalytic dimer docking to NF-κB substrates.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-52076-0

By:

Li, Changqing;
Moro, Stefano;
Shostak, Kateryna;
O'Reilly, Francis J.;
Donzeau, Mariel;
Graziadei, Andrea;
McEwen, Alastair G.;
Desplancq, Dominique;
Poussin-Courmontagne, Pierre;
Bachelart, Thomas;
Fiskin, Mert;
Berrodier, Nicolas;
Pichard, Simon;
Brillet, Karl;
Orfanoudakis, Georges;
Poterszman, Arnaud;
Torbeev, Vladimir;
Rappsilber, Juri;
Davey, Norman E.;
Chariot, Alain

Publication type:

Article

Model for stathmin/OP18 binding to tubulin.

Published in:

EMBO Journal, 2000, v. 19, n. 2, p. 213, doi. 10.1093/emboj/19.2.213

By:

Wallon, Gerlind;
Rappsilber, Juri;
Mann, Matthias;
Serrano, Luis

Publication type:

Article

A novel complex of membrane proteins required for formation of a spherical nucleus.

Published in:

EMBO Journal, 1998, v. 17, n. 22, p. 6449, doi. 10.1093/emboj/17.22.6449

By:

Siniossoglou, Symeon;
Santos-Rosa, Helena;
Rappsilber, Juri;
Mann, Mathias;
Hurt, Ed

Publication type:

Article

The NOT proteins are part of the CCR4 transcriptional complex and affect gene expression both positively and negatively.

Published in:

EMBO Journal, 1998, v. 17, n. 4, p. 1096, doi. 10.1093/emboj/17.4.1096

By:

Hai-Yan Liu;
Badarinarayana, Vasudeo;
Audino, Deborah C.;
Rappsilber, Juri;
Mann, Matthias;
Denis, Clyde L.

Publication type:

Article

RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination.

Published in:

BMC Biology, 2017, v. 15, p. 1, doi. 10.1186/s12915-017-0444-9

By:

Choudhury, Nila Roy;
Heikel, Gregory;
Trubitsyna, Maryia;
Kubik, Peter;
Nowak, Jakub Stanislaw;
Webb, Shaun;
Granneman, Sander;
Spanos, Christos;
Rappsilber, Juri;
Castello, Alfredo;
Michlewski, Gracjan

Publication type:

Article

Rescuing error control in crosslinking mass spectrometry.

Published in:

Molecular Systems Biology, 2024, v. 20, n. 9, p. 1076, doi. 10.1038/s44320-024-00057-2

By:

Fischer, Lutz;
Rappsilber, Juri

Publication type:

Article

Higher‐order modular regulation of the human proteome.

Published in:

Molecular Systems Biology, 2023, v. 19, n. 5, p. 1, doi. 10.15252/msb.20209503

By:

Kustatscher, Georg;
Hödl, Martina;
Rullmann, Edward;
Grabowski, Piotr;
Fiagbedzi, Emmanuel;
Groth, Anja;
Rappsilber, Juri

Publication type:

Article

Protein complexes in cells by AI‐assisted structural proteomics.

Published in:

Molecular Systems Biology, 2023, v. 19, n. 4, p. 1, doi. 10.15252/msb.202311544

By:

O'Reilly, Francis J;
Graziadei, Andrea;
Forbrig, Christian;
Bremenkamp, Rica;
Charles, Kristine;
Lenz, Swantje;
Elfmann, Christoph;
Fischer, Lutz;
Stülke, Jörg;
Rappsilber, Juri

Publication type:

Article

When less can yield more - Computational preprocessing of MS/MS spectra for peptide identification.

Published in:

Proteomics, 2009, v. 9, n. 21, p. 4978, doi. 10.1002/pmic.200900326

By:

Renard, Bernhard Y.;
Kirchner, Marc;
Monigatti, Flavio;
Ivanov, Alexander R.;
Rappsilber, Juri;
Winter, Dominic;
Steen, Judith A. J.;
Hamprecht, Fred A.;
Steen, Hanno

Publication type:

Article

Proteomic profiling of PrP27-30-enriched preparations extracted from the brain of hamsters with experimental scrapie.

Published in:

Proteomics, 2009, v. 9, n. 15, p. 3802, doi. 10.1002/pmic.200900085

By:

Giorgi, Alessandra;
Di Francesco, Laura;
Principe, Serena;
Mignogna, Giuseppina;
Sennels, Lau;
Mancone, Carmine;
Alonzi, Tonino;
Sbriccoli, Marco;
De Pascalis, Angela;
Rappsilber, Juri;
Cardone, Franco;
Pocchiari, Maurizio;
Maras, Bruno;
Schininà, M. Eugenia

Publication type:

Article

Self-made frits for nanoscale columns in proteomics.

Published in:

Proteomics, 2005, v. 5, n. 15, p. 3847, doi. 10.1002/pmic.200402010

By:

Alessio Maiolica;
Dario Borsotti;
Juri Rappsilber

Publication type:

Article

Spot overlapping in two-dimensional maps: A serious problem ignored for much too long.

Published in:

Proteomics, 2005, v. 5, n. 9, p. 2385, doi. 10.1002/pmic.200401253

By:

Natascia Campostrini;
Liliana B. Areces;
Juri Rappsilber;
Maria Chiara Pietrogrande;
Francesco Dondi;
Fabio Pastorino;
Mirco Ponzoni;
Pier Giorgio Righetti

Publication type:

Article

Sequence tag scanning: A new explorative strategy for recognition of unexpected protein alterations by nanoelectrospray ionization-tandem mass spectrometry.

Published in:

Proteomics, 2005, v. 5, n. 3, p. 667, doi. 10.1002/pmic.200401152

By:

Salek, Mogjiborahman;
Di Bartolo, Vincenzo;
Cittaro, Davide;
Borsotti, Dario;
Wei, Junhua;
Acuto, Oreste;
Rappsilber, Juri;
Lehmann, Wolf D.

Publication type:

Article

UTX and JMJD3 are histone H3K27 demethylases involved in HOX gene regulation and development.

Published in:

Nature, 2007, v. 449, n. 7163, p. 731, doi. 10.1038/nature06145

By:

Agger, Karl;
Cloos, Paul A. C.;
Christensen, Jesper;
Pasini, Diego;
Rose, Simon;
Rappsilber, Juri;
Issaeva, Irina;
Canaani, Eli;
Salcini, Anna Elisabetta;
Helin, Kristian

Publication type:

Article

The putative oncogene GASC1 demethylates tri- and dimethylated lysine 9 on histone H3.

Published in:

Nature, 2006, v. 442, n. 7100, p. 307, doi. 10.1038/nature04837

By:

Cloos, Paul A. C.;
Christensen, Jesper;
Agger, Karl;
Maiolica, Alessio;
Rappsilber, Juri;
Antal, Torben;
Hansen, Klaus H.;
Helin, Kristian

Publication type:

Article

Multiple RNA interactions position Mrd1 at the site of the small subunit pseudoknot within the 90S pre-ribosome.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 2, p. 1178, doi. 10.1093/nar/gks1129

By:

Segerstolpe, Åsa;
Granneman, Sander;
Björk, Petra;
de Lima Alves, Flavia;
Rappsilber, Juri;
Andersson, Charlotta;
Högbom, Martin;
Tollervey, David;
Wieslander, Lars

Publication type:

Article

Reliable identification of protein-protein interactions by crosslinking mass spectrometry.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-23666-z

By:

Lenz, Swantje;
Sinn, Ludwig R.;
O'Reilly, Francis J.;
Fischer, Lutz;
Wegner, Fritz;
Rappsilber, Juri

Publication type:

Article

Retention time prediction using neural networks increases identifications in crosslinking mass spectrometry.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-23441-0

By:

Giese, Sven H.;
Sinn, Ludwig R.;
Wegner, Fritz;
Rappsilber, Juri

Publication type:

Article

Transcriptomic and de novo proteomic analyses of organotypic entorhino-hippocampal tissue cultures reveal changes in metabolic and signaling regulators in TTX-induced synaptic plasticity.

Published in:

Molecular Brain, 2024, v. 17, n. 1, p. 1, doi. 10.1186/s13041-024-01153-y

By:

Lenz, Maximilian;
Turko, Paul;
Kruse, Pia;
Eichler, Amelie;
Chen, Zhuo Angel;
Rappsilber, Juri;
Vida, Imre;
Vlachos, Andreas

Publication type:

Article

Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex.

Published in:

Nature Genetics, 1998, v. 20, n. 1, p. 46, doi. 10.1038/1700

By:

Neubauer, Gitte;
King, Angus;
Rappsilber, Juri;
Calvio, Cinzia;
Watson, Mark;
Ajuh, Paul;
Sleeman, Judith;
Lamond, Angus;
Mann, Matthias

Publication type:

Article

Prdm5 Regulates Collagen Gene Transcription by Association with RNA Polymerase II in Developing Bone.

Published in:

PLoS Genetics, 2012, v. 8, n. 5, p. 1, doi. 10.1371/journal.pgen.1002711

By:

Galli, Giorgio Giacomo;
de Lichtenberg, Kristian Honnens;
Carrara, Matteo;
Hans, Wolfgang;
Wuelling, Manuela;
Mentz, Bettina;
Multhaupt, Hinke Arnolda;
Fog, Cathrine Kolster;
Jensen, Klaus Thorleif;
Rappsilber, Juri;
Vortkamp, Andrea;
Coulton, Les;
Fuchs, Helmut;
Gailus-Durner, Valérie;
de Angelis, Martin Hrabĕ;
Calogero, Raffaele Adolfo;
Couchman, John Robert;
Lund, Anders Henrik

Publication type:

Article

REST--Mediated Recruitment of Polycomb Repressor Complexes in Mammalian Cells.

Published in:

PLoS Genetics, 2012, v. 8, n. 3, p. 1, doi. 10.1371/journal.pgen.1002494

By:

Dietrich, Nikolaj;
Lerdrup, Mads;
Landt, Eskild;
Agrawal-Singh, Shuchi;
Bak, Mads;
Tommerup, Niels;
Rappsilber, Juri;
Södersten, Erik;
Hansen, Klaus

Publication type:

Article

Raf1 Is a DCAF for the Rik1 DDB1-Like Protein and Has Separable Roles in siRNA Generation and Chromatin Modification.

Published in:

PLoS Genetics, 2012, v. 8, n. 2, p. 1, doi. 10.1371/journal.pgen.1002499

By:

Buscaino, Alessia;
White, Sharon A.;
Houston, Douglas R.;
Lejeune, Erwan;
Simmer, Femke;
Alves, Flavia de Lima;
Diyora, Piyush T.;
Urano, Takeshi;
Bayne, Elizabeth H.;
Rappsilber, Juri;
Allshire, Robin C.

Publication type:

Article

Engineering Pyrrolysyl-tRNA Synthetase for the Incorporation of Non-Canonical Amino Acids with Smaller Side Chains.

Published in:

International Journal of Molecular Sciences, 2021, v. 22, n. 20, p. 11194, doi. 10.3390/ijms222011194

By:

Koch, Nikolaj G.;
Goettig, Peter;
Rappsilber, Juri;
Budisa, Nediljko

Publication type:

Article

Supraspliceosomes at Defined Functional States Portray the Pre-Assembled Nature of the Pre-mRNA Processing Machine in the Cell Nucleus.

Published in:

International Journal of Molecular Sciences, 2014, v. 15, n. 7, p. 11637, doi. 10.3390/ijms150711637

By:

Kotzer-Nevo, Hani;
de Lima Alves, Flavia;
Rappsilber, Juri;
Sperling, Joseph;
Sperling, Ruth

Publication type:

Article

mzIdentML 1.3.0 – Essential progress on the support of crosslinking and other identifications based on multiple spectra.

Published in:

Proteomics, 2024, v. 24, n. 17, p. 1, doi. 10.1002/pmic.202300385

By:

Combe, Colin W.;
Kolbowski, Lars;
Fischer, Lutz;
Koskinen, Ville;
Klein, Joshua;
Leitner, Alexander;
Jones, Andrew R.;
Vizcaíno, Juan Antonio;
Rappsilber, Juri

Publication type:

Article

Multiclassifier combinatorial proteomics of organelle shadows at the example of mitochondria in chromatin data.

Published in:

Proteomics, 2016, v. 16, n. 3, p. 393, doi. 10.1002/pmic.201500267

By:

Kustatscher, Georg;
Grabowski, Piotr;
Rappsilber, Juri

Publication type:

Article

A Focus on Chromatin Proteomics.

Published in:

2016

By:

Imhof, Axel;
Rappsilber, Juri

Publication type:

Editorial

Quantitative cross-linking/mass spectrometry to elucidate structural changes in proteins and their complexes.

Published in:

Nature Protocols, 2019, v. 14, n. 1, p. 171, doi. 10.1038/s41596-018-0089-3

By:

Chen, Zhuo A.;
Rappsilber, Juri

Publication type:

Article

False discovery rate estimation and heterobifunctional cross-linkers.

Published in:

PLoS ONE, 2018, v. 13, n. 5, p. 1, doi. 10.1371/journal.pone.0196672

By:

Fischer, Lutz;
Rappsilber, Juri

Publication type:

Article

Integrative structural analysis of the type III secretion system needle complex from Shigella flexneri.

Published in:

Protein Science: A Publication of the Protein Society, 2023, v. 32, n. 4, p. 1, doi. 10.1002/pro.4595

By:

Flacht, Lara;
Lunelli, Michele;
Kaszuba, Karol;
Chen, Zhuo Angel;
Reilly, Francis J. O'.;
Rappsilber, Juri;
Kosinski, Jan;
Kolbe, Michael

Publication type:

Article

Molecular mechanism targeting condensin for chromosome condensation.

Published in:

EMBO Journal, 2025, v. 44, n. 3, p. 705, doi. 10.1038/s44318-024-00336-6

By:

Wang, Menglu;
Robertson, Daniel;
Zou, Juan;
Spanos, Christos;
Rappsilber, Juri;
Marston, Adele L

Publication type:

Article

Structural mechanism of CRL4‐instructed STAT2 degradation via a novel cytomegaloviral DCAF receptor.

Published in:

EMBO Journal, 2023, v. 42, n. 5, p. 1, doi. 10.15252/embj.2022112351

By:

Le‐Trilling, Vu Thuy Khanh;
Banchenko, Sofia;
Paydar, Darius;
Leipe, Pia Madeleine;
Binting, Lukas;
Lauer, Simon;
Graziadei, Andrea;
Klingen, Robin;
Gotthold, Christine;
Bürger, Jörg;
Bracht, Thilo;
Sitek, Barbara;
Jan Lebbink, Robert;
Malyshkina, Anna;
Mielke, Thorsten;
Rappsilber, Juri;
Spahn, Christian MT;
Voigt, Sebastian;
Trilling, Mirko;
Schwefel, David

Publication type:

Article

Cryo‐EM reveals the complex architecture of dynactin's shoulder region and pointed end.

Published in:

EMBO Journal, 2021, v. 40, n. 8, p. 1, doi. 10.15252/embj.2020106164

By:

Lau, Clinton K;
O'Reilly, Francis J;
Santhanam, Balaji;
Lacey, Samuel E;
Rappsilber, Juri;
Carter, Andrew P

Publication type:

Article

Structural basis for centromere maintenance by Drosophila CENP‐A chaperone CAL1.

Published in:

EMBO Journal, 2020, v. 39, n. 7, p. 1, doi. 10.15252/embj.2019103234

By:

Medina‐Pritchard, Bethan;
Lazou, Vasiliki;
Zou, Juan;
Byron, Olwyn;
Abad, Maria A;
Rappsilber, Juri;
Heun, Patrick;
Jeyaprakash, A Arockia

Publication type:

Article

The kinetochore module Okp1CENP‐Q/Ame1CENP‐U is a reader for N‐terminal modifications on the centromeric histone Cse4CENP‐A.

Published in:

EMBO Journal, 2019, v. 38, n. 1, p. N.PAG, doi. 10.15252/embj.201898991

By:

Anedchenko, Ekaterina A;
Samel‐Pommerencke, Anke;
Tran Nguyen, Tra My;
Shahnejat‐Bushehri, Sara;
Pöpsel, Juliane;
Lauster, Daniel;
Herrmann, Andreas;
Rappsilber, Juri;
Cuomo, Alessandro;
Bonaldi, Tiziana;
Ehrenhofer‐Murray, Ann E

Publication type:

Article

Proteomics of a fuzzy organelle: interphase chromatin.

Published in:

EMBO Journal, 2014, v. 33, n. 6, p. 648, doi. 10.1002/embj.201387614

By:

Kustatscher, Georg;
Hégarat, Nadia;
Wills, Karen L H;
Furlan, Cristina;
Bukowski‐Wills, Jimi‐Carlo;
Hochegger, Helfrid;
Rappsilber, Juri

Publication type:

Article

Endogenous Mouse Dicer Is an Exclusively Cytoplasmic Protein.

Published in:

PLoS Genetics, 2016, v. 12, n. 6, p. 1, doi. 10.1371/journal.pgen.1006095

By:

Much, Christian;
Auchynnikava, Tania;
Pavlinic, Dinko;
Buness, Andreas;
Rappsilber, Juri;
Benes, Vladimir;
Allshire, Robin;
O’Carroll, Dónal

Publication type:

Article

Correction: Mps1Mph1 Kinase Phosphorylates Mad3 to Inhibit Cdc20Slp1-APC/C and Maintain Spindle Checkpoint Arrests.

Published in:

2016

By:

Zich, Judith;
May, Karen;
Paraskevopoulos, Konstantinos;
Sen, Onur;
Syred, Heather M.;
van der Sar, Sjaak;
Patel, Hitesh;
Moresco, James J.;
Sarkeshik, Ali;
Yates, John R.;
Rappsilber, Juri;
Hardwick, Kevin G.

Publication type:

Correction Notice

Correction: Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2.

Published in:

2016

By:

Liang, Shih Chieh;
Hartwig, Ben;
Perera, Pumi;
Mora-García, Santiago;
de Leau, Erica;
Thornton, Harry;
de Lima Alves, Flavia;
Rappsilber, Juri;
Yang, Suxin;
James, Geo Velikkakam;
Schneeberger, Korbinian;
Finnegan, E. Jean;
Turck, Franziska;
Goodrich, Justin

Publication type:

Correction Notice

Mps1Mph1 Kinase Phosphorylates Mad3 to Inhibit Cdc20Slp1-APC/C and Maintain Spindle Checkpoint Arrests.

Published in:

PLoS Genetics, 2016, v. 12, n. 2, p. 1, doi. 10.1371/journal.pgen.1005834

By:

Zich, Judith;
May, Karen;
Paraskevopoulos, Konstantinos;
Sen, Onur;
Syred, Heather M.;
van der Sar, Sjaak;
Patel, Hitesh;
Moresco, James J.;
Sarkeshik, Ali;
IIIYates, John R.;
Rappsilber, Juri;
Hardwick, Kevin G.

Publication type:

Article

ComplexViewer: visualization of curated macromolecular complexes.

Published in:

Bioinformatics, 2017, v. 33, n. 22, p. 3673, doi. 10.1093/bioinformatics/btx497

By:

Combe, Colin W.;
Sivade, Marine (Dumousseau);
Hermjakob, Henning;
Heimbach, Joshua;
Meldal, Birgit H. M.;
Micklem, Gos;
Orchard, Sandra;
Rappsilber, Juri

Publication type:

Article

Rett syndrome mutations abolish the interaction of MeCP2 with the NCoR/SMRT co-repressor.

Published in:

Nature Neuroscience, 2013, v. 16, n. 7, p. 898, doi. 10.1038/nn.3434

By:

Lyst, Matthew J;
Ekiert, Robert;
Ebert, Daniel H;
Merusi, Cara;
Nowak, Jakub;
Selfridge, Jim;
Guy, Jacky;
Kastan, Nathaniel R;
Robinson, Nathaniel D;
de Lima Alves, Flavia;
Rappsilber, Juri;
Greenberg, Michael E;
Bird, Adrian

Publication type:

Article

Differentiation granules, a dynamic regulator of T. brucei development.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-47309-1

By:

Cayla, Mathieu;
Spanos, Christos;
McWilliam, Kirsty;
Waskett, Eliza;
Rappsilber, Juri;
Matthews, Keith R.

Publication type:

Article

Unrip is a component of SMN complexes active in snRNP assembly

Published in:

FEBS Letters, 2005, v. 579, n. 11, p. 2348, doi. 10.1016/j.febslet.2005.03.034

By:

Carissimi, Claudia;
Baccon, Jennifer;
Straccia, Marco;
Chiarella, Pieranna;
Maiolica, Alessio;
Sawyer, Alan;
Rappsilber, Juri;
Pellizzoni, Livio

Publication type:

Article

Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13.

Published in:

2020

By:

Fajardo, J. Eduardo;
Shrestha, Rojan;
Gil, Nelson;
Belsom, Adam;
Crivelli, Silvia N.;
Czaplewski, Cezary;
Fidelis, Krzysztof;
Grudinin, Sergei;
Karasikov, Mikhail;
Karczyńska, Agnieszka S.;
Kryshtafovych, Andriy;
Leitner, Alexander;
Liwo, Adam;
Lubecka, Emilia A.;
Monastyrskyy, Bohdan;
Pagès, Guillaume;
Rappsilber, Juri;
Sieradzan, Adam K.;
Sikorska, Celina;
Trabjerg, Esben

Publication type:

Correction Notice

Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13.

Published in:

Proteins, 2019, v. 87, n. 12, p. 1283, doi. 10.1002/prot.25816

By:

Fajardo, J. Eduardo;
Shrestha, Rojan;
Gil, Nelson;
Belsom, Adam;
Crivelli, Silvia N.;
Czaplewski, Cezary;
Fidelis, Krzysztof;
Grudinin, Sergei;
Karasikov, Mikhail;
Karczyńska, Agnieszka S.;
Kryshtafovych, Andriy;
Leitner, Alexander;
Liwo, Adam;
Lubecka, Emilia A.;
Monastyrskyy, Bohdan;
Pagès, Guillaume;
Rappsilber, Juri;
Sieradzan, Adam K.;
Sikorska, Celina;
Trabjerg, Esben

Publication type:

Article

Small angle X‐ray scattering and cross‐linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy.

Published in:

Proteins, 2018, v. 86, n. 1, p. 202, doi. 10.1002/prot.25452

By:

Ogorzalek, Tadeusz L.;
Hura, Greg L.;
Belsom, Adam;
Burnett, Kathryn H.;
Kryshtafovych, Andriy;
Tainer, John A.;
Rappsilber, Juri;
Tsutakawa, Susan E.;
Fidelis, Krzysztof

Publication type:

Article