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102 results for Beltrao,+Pedro

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ArticlesPeer ReviewedFull Text
Evolution of protein kinase substrate recognition at the active site
Author / Creator:Bradley, David ; Beltrao, Pedro
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2019-06, Vol.17 (6), p.e3000341-e3000341
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ArticlesPeer ReviewedFull Text
High-throughput deep learning variant effect prediction with Sequence UNET
Author / Creator:Dunham, Alistair S. ; Beltrao, Pedro ; AlQuraishi, Mohammed
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2023-05, Vol.24 (1), p.110-110, Article 110
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Deep learning for protein structure prediction and design—progress and applications
Author / Creator:Jänes, Jürgen ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2024-03, Vol.20 (3), p.162-169
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The functional landscape of the human phosphoproteome
Author / Creator:Ochoa, David ; Jarnuczak, Andrew F. ; Viéitez, Cristina ; Gehre, Maja ; Soucheray, Margaret ; Mateus, André ; Kleefeldt, Askar A. ; Hill, Anthony ; Garcia-Alonso, Luz ; Stein, Frank ; Krogan, Nevan J. ; Savitski, Mikhail M. ; Swaney, Danielle L. ; Vizcaíno, Juan A. ; Noh, Kyung-Min ; Beltrao, Pedro
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2020-03, Vol.38 (3), p.365-373
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ArticlesPeer ReviewedFull Text
Clustering predicted structures at the scale of the known protein universe
Author / Creator:Barrio-Hernandez, Inigo ; Yeo, Jingi ; Jänes, Jürgen ; Mirdita, Milot ; Gilchrist, Cameron L. M. ; Wein, Tanita ; Varadi, Mihaly ; Velankar, Sameer ; Beltrao, Pedro ; Steinegger, Martin
Publisher:London: Nature Publishing Group UK
Journal title:Nature (London), 2023-10, Vol.622 (7983), p.637-645
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ArticlesPeer ReviewedFull Text
Exploring amino acid functions in a deep mutational landscape
Author / Creator:Dunham, Alistair S ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2021-07, Vol.17 (7), p.e10305-n/a
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Genome-wide meta-analysis, fine-mapping and integrative prioritization implicate new Alzheimer’s disease risk genes
Author / Creator:Schwartzentruber, Jeremy ; Cooper, Sarah ; Liu, Jimmy Z. ; Barrio-Hernandez, Inigo ; Bello, Erica ; Kumasaka, Natsuhiko ; Young, Adam M. H. ; Franklin, Robin J. M. ; Johnson, Toby ; Estrada, Karol ; Gaffney, Daniel J. ; Beltrao, Pedro ; Bassett, Andrew
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2021-03, Vol.53 (3), p.392-402
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A structural biology community assessment of AlphaFold2 applications
Author / Creator:Akdel, Mehmet ; Pires, Douglas E. V. ; Pardo, Eduard Porta ; Jänes, Jürgen ; Zalevsky, Arthur O. ; Mészáros, Bálint ; Bryant, Patrick ; Good, Lydia L. ; Laskowski, Roman A. ; Pozzati, Gabriele ; Shenoy, Aditi ; Zhu, Wensi ; Kundrotas, Petras ; Serra, Victoria Ruiz ; Rodrigues, Carlos H. M. ; Dunham, Alistair S. ; Burke, David ; Borkakoti, Neera ; Velankar, Sameer ; Frost, Adam ; Basquin, Jérôme ; Lindorff-Larsen, Kresten ; Bateman, Alex ; Kajava, Andrey V. ; Valencia, Alfonso ; Ovchinnikov, Sergey ; Durairaj, Janani ; Ascher, David B. ; Thornton, Janet M. ; Davey, Norman E. ; Stein, Amelie ; Elofsson, Arne ; Croll, Tristan I. ; Beltrao, Pedro
Publisher:New York: Nature Publishing Group US
Journal title:Nature structural & molecular biology, 2022-11, Vol.29 (11), p.1056-1067
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Evolution and functional cross‐talk of protein post‐translational modifications
Author / Creator:Beltrao, Pedro ; Bork, Peer ; Krogan, Nevan J. ; van Noort, Vera
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2013, Vol.9 (1), p.714-n/a
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Towards a structurally resolved human protein interaction network
Author / Creator:Burke, David F. ; Bryant, Patrick ; Barrio-Hernandez, Inigo ; Memon, Danish ; Pozzati, Gabriele ; Shenoy, Aditi ; Zhu, Wensi ; Dunham, Alistair S. ; Albanese, Pascal ; Keller, Andrew ; Scheltema, Richard A. ; Bruce, James E. ; Leitner, Alexander ; Kundrotas, Petras ; Beltrao, Pedro ; Elofsson, Arne
Publisher:New York: Nature Publishing Group US
Journal title:Nature structural & molecular biology, 2023-02, Vol.30 (2), p.216-225
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ArticlesPeer ReviewedFull Text
Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation
Author / Creator:Swaney, Danielle L ; Beltrao, Pedro ; Starita, Lea ; Guo, Ailan ; Rush, John ; Fields, Stanley ; Krogan, Nevan J ; Villén, Judit
Publisher:New York: Nature Publishing Group US
Journal title:Nature methods, 2013-07, Vol.10 (7), p.676-682
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ArticlesPeer ReviewedFull Text
Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study
Author / Creator:Galardini, Marco ; Clermont, Olivier ; Baron, Alexandra ; Busby, Bede ; Dion, Sara ; Schubert, Sören ; Beltrao, Pedro ; Denamur, Erick
Publisher:United States: Public Library of Science
Journal title:PLoS genetics, 2020-10, Vol.16 (10), p.e1009065-e1009065
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Conserved phosphorylation hotspots in eukaryotic protein domain families
Author / Creator:Strumillo, Marta J. ; Oplová, Michaela ; Viéitez, Cristina ; Ochoa, David ; Shahraz, Mohammed ; Busby, Bede P. ; Sopko, Richelle ; Studer, Romain A. ; Perrimon, Norbert ; Panse, Vikram G. ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2019-04, Vol.10 (1), p.1977-1977, Article 1977
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ArticlesPeer ReviewedFull Text
A resource of variant effect predictions of single nucleotide variants in model organisms
Author / Creator:Wagih, Omar ; Galardini, Marco ; Busby, Bede P ; Memon, Danish ; Typas, Athanasios ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2018-12, Vol.14 (12), p.e8430-n/a
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ArticlesPeer ReviewedFull Text
The impact of the genetic background on gene deletion phenotypes in Saccharomyces cerevisiae
Author / Creator:Galardini, Marco ; Busby, Bede P ; Vieitez, Cristina ; Dunham, Alistair S ; Typas, Athanasios ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2019-12, Vol.15 (12), p.e8831-n/a
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ArticlesPeer ReviewedFull Text
Causal integration of multi‐omics data with prior knowledge to generate mechanistic hypotheses
Author / Creator:Dugourd, Aurelien ; Kuppe, Christoph ; Sciacovelli, Marco ; Gjerga, Enio ; Gabor, Attila ; Emdal, Kristina B. ; Vieira, Vitor ; Bekker‐Jensen, Dorte B. ; Kranz, Jennifer ; Bindels, Eric.M.J. ; Costa, Ana S.H. ; Sousa, Abel ; Beltrao, Pedro ; Rocha, Miguel ; Olsen, Jesper V. ; Frezza, Christian ; Kramann, Rafael ; Saez‐Rodriguez, Julio
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2021-01, Vol.17 (1), p.e9730-n/a
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Pan‐Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival
Author / Creator:Sousa, Abel ; Dugourd, Aurelien ; Memon, Danish ; Petursson, Borgthor ; Petsalaki, Evangelia ; Saez‐Rodriguez, Julio ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2023-03, Vol.19 (3), p.e10631-n/a
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ArticlesPeer ReviewedFull Text
Individual COVID‐19 disease trajectories revealed by plasma proteomics
Author / Creator:Memon, Danish ; Barrio‐Hernandez, Inigo ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:EMBO molecular medicine, 2021-08, Vol.13 (8), p.e14532-n/a
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Multi-tissue characterization of the constitutive heterochromatin proteome in Drosophila identifies a link between satellite DNA organization and transposon repression
Author / Creator:Chavan, Ankita ; Skrutl, Lena ; Uliana, Federico ; Pfister, Melanie ; Brändle, Franziska ; Tirian, Laszlo ; Baptista, Delora ; Handler, Dominik ; Burke, David ; Sintsova, Anna ; Beltrao, Pedro ; Brennecke, Julius ; Jagannathan, Madhav
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2025-01, Vol.23 (1), p.e3002984
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An atlas of human kinase regulation
Author / Creator:Ochoa, David ; Jonikas, Mindaugas ; Lawrence, Robert T ; El Debs, Bachir ; Selkrig, Joel ; Typas, Athanasios ; Villén, Judit ; Santos, Silvia DM ; Beltrao, Pedro
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2016-12, Vol.12 (12), p.888-n/a
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Evolution of protein kinase substrate recognition at the active site

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High-throughput deep learning variant effect prediction with Sequence UNET

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Deep learning for protein structure prediction and design—progress and applications

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The functional landscape of the human phosphoproteome

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Clustering predicted structures at the scale of the known protein universe

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Exploring amino acid functions in a deep mutational landscape

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Genome-wide meta-analysis, fine-mapping and integrative prioritization implicate new Alzheimer’s disease risk genes

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A structural biology community assessment of AlphaFold2 applications

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Evolution and functional cross‐talk of protein post‐translational modifications

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Towards a structurally resolved human protein interaction network

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Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation

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Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study

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Conserved phosphorylation hotspots in eukaryotic protein domain families

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A resource of variant effect predictions of single nucleotide variants in model organisms

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The impact of the genetic background on gene deletion phenotypes in Saccharomyces cerevisiae

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Causal integration of multi‐omics data with prior knowledge to generate mechanistic hypotheses

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Pan‐Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival

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Individual COVID‐19 disease trajectories revealed by plasma proteomics

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Multi-tissue characterization of the constitutive heterochromatin proteome in Drosophila identifies a link between satellite DNA organization and transposon repression

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An atlas of human kinase regulation

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