| Year |
Citation |
Score |
| 2023 |
Wang B, Vartak R, Zaltsman Y, Naing ZZC, Hennick KM, Polacco BJ, Bashir A, Eckhardt M, Bouhaddou M, Xu J, Sun N, Lasser M, Zhou Y, Guiley KZ, Chan U, ... ... Beltrao P, et al. A foundational atlas of autism protein interactions reveals molecular convergence. Biorxiv : the Preprint Server For Biology. PMID 38076945 DOI: 10.1101/2023.12.03.569805 |
0.735 |
|
| 2023 |
Bouhaddou M, Reuschl AK, Polacco BJ, Thorne LG, Ummadi MR, Ye C, Rosales R, Pelin A, Batra J, Jang GM, Xu J, Moen JM, Richards AL, Zhou Y, Harjai B, ... ... Beltrao P, et al. SARS-CoV-2 variants evolve convergent strategies to remodel the host response. Cell. PMID 37738970 DOI: 10.1016/j.cell.2023.08.026 |
0.758 |
|
| 2023 |
Burke DF, Bryant P, Barrio-Hernandez I, Memon D, Pozzati G, Shenoy A, Zhu W, Dunham AS, Albanese P, Keller A, Scheltema RA, Bruce JE, Leitner A, Kundrotas P, Beltrao P, et al. Towards a structurally resolved human protein interaction network. Nature Structural & Molecular Biology. PMID 36690744 DOI: 10.1038/s41594-022-00910-8 |
0.365 |
|
| 2022 |
Sridharan S, Hernandez-Armendariz A, Kurzawa N, Potel CM, Memon D, Beltrao P, Bantscheff M, Huber W, Cuylen-Haering S, Savitski MM. Systematic discovery of biomolecular condensate-specific protein phosphorylation. Nature Chemical Biology. PMID 35864335 DOI: 10.1038/s41589-022-01062-y |
0.307 |
|
| 2022 |
Johnson JR, Crosby DC, Hultquist JF, Kurland AP, Adhikary P, Li D, Marlett J, Swann J, Hüttenhain R, Verschueren E, Johnson TL, Newton BW, Shales M, Simon VA, Beltrao P, et al. Global post-translational modification profiling of HIV-1-infected cells reveals mechanisms of host cellular pathway remodeling. Cell Reports. 39: 110690. PMID 35417684 DOI: 10.1016/j.celrep.2022.110690 |
0.488 |
|
| 2022 |
Thorne LG, Bouhaddou M, Reuschl AK, Zuliani-Alvarez L, Polacco B, Pelin A, Batra J, Whelan MVX, Hosmillo M, Fossati A, Ragazzini R, Jungreis I, Ummadi M, Rojc A, Turner J, ... ... Beltrao P, et al. Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 35332335 DOI: 10.1038/s41586-022-04653-w |
0.741 |
|
| 2021 |
Thorne LG, Bouhaddou M, Reuschl AK, Zuliani-Alvarez L, Polacco B, Pelin A, Batra J, Whelan MVX, Hosmillo M, Fossati A, Ragazzini R, Jungreis I, Ummadi M, Rojc A, Turner J, ... ... Beltrao P, et al. Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 34942634 DOI: 10.1038/s41586-021-04352-y |
0.774 |
|
| 2021 |
Thorne LG, Bouhaddou M, Reuschl AK, Zuliani-Alvarez L, Polacco B, Pelin A, Batra J, Whelan MVX, Ummadi M, Rojc A, Turner J, Obernier K, Braberg H, Soucheray M, Richards A, ... ... Beltrao P, et al. Evolution of enhanced innate immune evasion by the SARS-CoV-2 B.1.1.7 UK variant. Biorxiv : the Preprint Server For Biology. PMID 34127972 DOI: 10.1101/2021.06.06.446826 |
0.767 |
|
| 2021 |
Selkrig J, Stanifer M, Mateus A, Mitosch K, Barrio-Hernandez I, Rettel M, Kim H, Voogdt CGP, Walch P, Kee C, Kurzawa N, Stein F, Potel C, Jarzab A, Kuster B, ... ... Beltrao P, et al. SARS-CoV-2 infection remodels the host protein thermal stability landscape. Molecular Systems Biology. 17: e10188. PMID 33590968 DOI: 10.15252/msb.202010188 |
0.322 |
|
| 2020 |
Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, ... ... Beltrao P, et al. Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. Science (New York, N.Y.). PMID 33060197 DOI: 10.1126/science.abe9403 |
0.775 |
|
| 2020 |
Bouhaddou M, Memon D, Meyer B, White KM, Rezelj VV, Correa Marrero M, Polacco BJ, Melnyk JE, Ulferts S, Kaake RM, Batra J, Richards AL, Stevenson E, Gordon DE, Rojc A, ... ... Beltrao P, et al. The Global Phosphorylation Landscape of SARS-CoV-2 Infection. Cell. PMID 32645325 DOI: 10.1016/J.Cell.2020.06.034 |
0.763 |
|
| 2020 |
Selkrig J, Li N, Hausmann A, Mangan MSJ, Zietek M, Mateus A, Bobonis J, Sueki A, Imamura H, El Debs B, Sigismondo G, Florea BI, Overkleeft HS, Kopitar-Jerala N, Turk B, ... Beltrao P, et al. Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection. Nature Microbiology. PMID 32514074 DOI: 10.1038/S41564-020-0736-7 |
0.394 |
|
| 2020 |
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, ... ... Beltrao P, et al. A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. Biorxiv : the Preprint Server For Biology. PMID 32511329 DOI: 10.1101/2020.03.22.002386 |
0.77 |
|
| 2020 |
Jiménez-Sánchez A, Cybulska P, Mager KL, Koplev S, Cast O, Couturier DL, Memon D, Selenica P, Nikolovski I, Mazaheri Y, Bykov Y, Geyer FC, Macintyre G, Gavarró LM, Drews RM, ... ... Beltrao P, et al. Unraveling tumor-immune heterogeneity in advanced ovarian cancer uncovers immunogenic effect of chemotherapy. Nature Genetics. PMID 32483290 DOI: 10.1038/S41588-020-0630-5 |
0.306 |
|
| 2020 |
Invergo BM, Petursson B, Akhtar N, Bradley D, Giudice G, Hijazi M, Cutillas P, Petsalaki E, Beltrao P. Prediction of Signed Protein Kinase Regulatory Circuits. Cell Systems. 10: 384-396.e9. PMID 32437683 DOI: 10.1016/J.Cels.2020.04.005 |
0.346 |
|
| 2020 |
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Huettenhain R, Kaake RM, Richards AL, Tutuncuoglu B, ... ... Beltrao P, et al. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. PMID 32353859 DOI: 10.1038/S41586-020-2286-9 |
0.766 |
|
| 2019 |
Ochoa D, Jarnuczak AF, Viéitez C, Gehre M, Soucheray M, Mateus A, Kleefeldt AA, Hill A, Garcia-Alonso L, Stein F, Krogan NJ, Savitski MM, Swaney DL, Vizcaíno JA, Noh KM, ... Beltrao P, et al. The functional landscape of the human phosphoproteome. Nature Biotechnology. PMID 31819260 DOI: 10.1038/S41587-019-0344-3 |
0.572 |
|
| 2019 |
Bruno L, Ramlall V, Studer RA, Sauer S, Bradley D, Dharmalingam G, Carroll T, Ghoneim M, Chopin M, Nutt SL, Elderkin S, Rueda DS, Fisher AG, Siggers T, Beltrao P, et al. Selective deployment of transcription factor paralogs with submaximal strength facilitates gene regulation in the immune system. Nature Immunology. PMID 31451789 DOI: 10.1038/S41590-019-0471-5 |
0.317 |
|
| 2019 |
Sousa A, Gonçalves E, Mirauta B, Ochoa D, Stegle O, Beltrao P. Multi-omics characterization of interaction-mediated control of human protein abundance levels. Molecular & Cellular Proteomics : McP. PMID 31239291 DOI: 10.1074/Mcp.Ra118.001280 |
0.431 |
|
| 2019 |
Bradley D, Beltrao P. Evolution of protein kinase substrate recognition at the active site. Plos Biology. 17: e3000341. PMID 31233486 DOI: 10.1371/Journal.Pbio.3000341 |
0.368 |
|
| 2019 |
Strumillo MJ, Oplová M, Viéitez C, Ochoa D, Shahraz M, Busby BP, Sopko R, Studer RA, Perrimon N, Panse VG, Beltrao P. Conserved phosphorylation hotspots in eukaryotic protein domain families. Nature Communications. 10: 1977. PMID 31036831 DOI: 10.1038/S41467-019-09952-X |
0.393 |
|
| 2019 |
Del-Toro N, Duesbury M, Koch M, Perfetto L, Shrivastava A, Ochoa D, Wagih O, Piñero J, Kotlyar M, Pastrello C, Beltrao P, Furlong LI, Jurisica I, Hermjakob H, Orchard S, et al. Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. Nature Communications. 10: 10. PMID 30602777 DOI: 10.1038/S41467-018-07709-6 |
0.351 |
|
| 2018 |
Wagih O, Galardini M, Busby BP, Memon D, Typas A, Beltrao P. A resource of variant effect predictions of single nucleotide variants in model organisms. Molecular Systems Biology. 14: e8430. PMID 30573687 DOI: 10.15252/Msb.20188430 |
0.355 |
|
| 2018 |
Hu Y, Sopko R, Chung V, Foos M, Studer RA, Landry SD, Liu D, Rabinow L, Gnad F, Beltrao P, Perrimon N. iProteinDB: An Integrative Database of Post-translational Modifications. G3 (Bethesda, Md.). PMID 30397019 DOI: 10.1534/G3.118.200637 |
0.415 |
|
| 2018 |
Invergo BM, Beltrao P. Reconstructing phosphorylation signalling networks from quantitative phosphoproteomic data. Essays in Biochemistry. PMID 30072490 DOI: 10.1042/Ebc20180019 |
0.34 |
|
| 2018 |
Ochoa D, Bradley D, Beltrao P. Evolution, dynamics and dysregulation of kinase signalling. Current Opinion in Structural Biology. 48: 133-140. PMID 29316484 DOI: 10.1016/J.Sbi.2017.12.008 |
0.351 |
|
| 2017 |
Invergo BM, Brochet M, Yu L, Choudhary J, Beltrao P, Billker O. Sub-minute Phosphoregulation of Cell Cycle Systems during Plasmodium Gamete Formation. Cell Reports. 21: 2017-2029. PMID 29141230 DOI: 10.1016/J.Celrep.2017.10.071 |
0.394 |
|
| 2017 |
Gonçalves E, Fragoulis A, Garcia-Alonso L, Cramer T, Saez-Rodriguez J, Beltrao P. Widespread Post-transcriptional Attenuation of Genomic Copy-Number Variation in Cancer. Cell Systems. PMID 29032074 DOI: 10.1016/J.Cels.2017.08.013 |
0.351 |
|
| 2017 |
Roumeliotis TI, Williams SP, Gonçalves E, Alsinet C, Del Castillo Velasco-Herrera M, Aben N, Ghavidel FZ, Michaut M, Schubert M, Price S, Wright JC, Yu L, Yang M, Dienstmann R, Guinney J, ... Beltrao P, et al. Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells. Cell Reports. 20: 2201-2214. PMID 28854368 DOI: 10.1016/J.Celrep.2017.08.010 |
0.391 |
|
| 2017 |
Imamura H, Wagih O, Niinae T, Sugiyama N, Beltrao P, Ishihama Y. Identifications of Putative PKA Substrates with Quantitative Phosphoproteomics and Primary-Sequence-Based Scoring. Journal of Proteome Research. PMID 28287266 DOI: 10.1021/Acs.Jproteome.7B00087 |
0.37 |
|
| 2017 |
Hernandez-Armenta C, Ochoa D, Gonçalves E, Saez-Rodriguez J, Beltrao P. Benchmarking substrate-based kinase activity inference using phosphoproteomic data. Bioinformatics (Oxford, England). PMID 28200105 DOI: 10.1093/Bioinformatics/Btx082 |
0.319 |
|
| 2017 |
Gonçalves E, Raguz Nakic Z, Zampieri M, Wagih O, Ochoa D, Sauer U, Beltrao P, Saez-Rodriguez J. Systematic Analysis of Transcriptional and Post-transcriptional Regulation of Metabolism in Yeast. Plos Computational Biology. 13: e1005297. PMID 28072816 DOI: 10.1371/Journal.Pcbi.1005297 |
0.332 |
|
| 2016 |
Ochoa D, Jonikas M, Lawrence RT, El Debs B, Selkrig J, Typas A, Villén J, Santos SD, Beltrao P. An atlas of human kinase regulation. Molecular Systems Biology. 12: 888. PMID 27909043 DOI: 10.15252/Msb.20167295 |
0.348 |
|
| 2016 |
Studer RA, Rodriguez-Mias RA, Haas KM, Hsu JI, Viéitez C, Solé C, Swaney DL, Stanford LB, Liachko I, Böttcher R, Dunham MJ, de Nadal E, Posas F, Beltrao P, Villén J. Evolution of protein phosphorylation across 18 fungal species. Science (New York, N.Y.). 354: 229-232. PMID 27738172 DOI: 10.1126/Science.Aaf2144 |
0.415 |
|
| 2016 |
Wagih O, Sugiyama N, Ishihama Y, Beltrao P. Uncovering Phosphorylation-Based Specificities through Functional Interaction Networks. Molecular & Cellular Proteomics : McP. 15: 236-45. PMID 26572964 DOI: 10.1074/Mcp.M115.052357 |
0.385 |
|
| 2015 |
Johnson JR, Santos SD, Johnson T, Pieper U, Strumillo M, Wagih O, Sali A, Krogan NJ, Beltrao P. Prediction of Functionally Important Phospho-Regulatory Events in Xenopus laevis Oocytes. Plos Computational Biology. 11: e1004362. PMID 26312481 DOI: 10.1371/Journal.Pcbi.1004362 |
0.578 |
|
| 2015 |
Strumillo M, Beltrao P. Towards the computational design of protein post-translational regulation. Bioorganic & Medicinal Chemistry. 23: 2877-82. PMID 25956846 DOI: 10.1016/J.Bmc.2015.04.056 |
0.414 |
|
| 2015 |
Martin H, Shales M, Fernandez-Piñar P, Wei P, Molina M, Fiedler D, Shokat KM, Beltrao P, Lim W, Krogan NJ. Differential genetic interactions of yeast stress response MAPK pathways. Molecular Systems Biology. 11: 800. PMID 25888283 DOI: 10.15252/Msb.20145606 |
0.533 |
|
| 2015 |
Ochoa D, Beltrao P. Kinase-two-hybrid: towards the conditional interactome. Molecular Systems Biology. 11: 798. PMID 25814556 DOI: 10.15252/Msb.20156107 |
0.31 |
|
| 2014 |
Rinschen MM, Wu X, König T, Pisitkun T, Hagmann H, Pahmeyer C, Lamkemeyer T, Kohli P, Schnell N, Schermer B, Dryer S, Brooks BR, Beltrao P, Krueger M, Brinkkoetter PT, et al. Phosphoproteomic analysis reveals regulatory mechanisms at the kidney filtration barrier. Journal of the American Society of Nephrology : Jasn. 25: 1509-22. PMID 24511133 DOI: 10.1681/Asn.2013070760 |
0.405 |
|
| 2013 |
Beltrao P, Bork P, Krogan NJ, van Noort V. Evolution and functional cross-talk of protein post-translational modifications. Molecular Systems Biology. 9: 714. PMID 24366814 DOI: 10.1002/Msb.201304521 |
0.564 |
|
| 2013 |
Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J. Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation. Nature Methods. 10: 676-82. PMID 23749301 DOI: 10.1038/Nmeth.2519 |
0.553 |
|
| 2012 |
Beltrao P, Ryan C, Krogan NJ. Comparative interaction networks: bridging genotype to phenotype. Advances in Experimental Medicine and Biology. 751: 139-56. PMID 22821457 DOI: 10.1007/978-1-4614-3567-9_7 |
0.575 |
|
| 2012 |
Beltrao P, Albanèse V, Kenner LR, Swaney DL, Burlingame A, Villén J, Lim WA, Fraser JS, Frydman J, Krogan NJ. Systematic functional prioritization of protein posttranslational modifications. Cell. 150: 413-25. PMID 22817900 DOI: 10.1016/J.Cell.2012.05.036 |
0.583 |
|
| 2012 |
Ryan CJ, Roguev A, Patrick K, Xu J, Jahari H, Tong Z, Beltrao P, Shales M, Qu H, Collins SR, Kliegman JI, Jiang L, Kuo D, Tosti E, Kim HS, et al. Hierarchical modularity and the evolution of genetic interactomes across species. Molecular Cell. 46: 691-704. PMID 22681890 DOI: 10.1016/J.Molcel.2012.05.028 |
0.543 |
|
| 2011 |
Charles GM, Chen C, Shih SC, Collins SR, Beltrao P, Zhang X, Sharma T, Tan S, Burlingame AL, Krogan NJ, Madhani HD, Narlikar GJ. Site-specific acetylation mark on an essential chromatin-remodeling complex promotes resistance to replication stress. Proceedings of the National Academy of Sciences of the United States of America. 108: 10620-5. PMID 21673141 DOI: 10.1073/Pnas.1019735108 |
0.473 |
|
| 2011 |
Nichols RJ, Sen S, Choo YJ, Beltrao P, Zietek M, Chaba R, Lee S, Kazmierczak KM, Lee KJ, Wong A, Shales M, Lovett S, Winkler ME, Krogan NJ, Typas A, et al. Phenotypic landscape of a bacterial cell. Cell. 144: 143-56. PMID 21185072 DOI: 10.1016/J.Cell.2010.11.052 |
0.5 |
|
| 2010 |
Kapitzky L, Beltrao P, Berens TJ, Gassner N, Zhou C, Wüster A, Wu J, Babu MM, Elledge SJ, Toczyski D, Lokey RS, Krogan NJ. Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action. Molecular Systems Biology. 6: 451. PMID 21179023 DOI: 10.1038/Msb.2010.107 |
0.504 |
|
| 2010 |
Lefebvre C, Rajbhandari P, Alvarez MJ, Bandaru P, Lim WK, Sato M, Wang K, Sumazin P, Kustagi M, Bisikirska BC, Basso K, Beltrao P, Krogan N, Gautier J, Dalla-Favera R, et al. A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Molecular Systems Biology. 6: 377. PMID 20531406 DOI: 10.1038/Msb.2010.31 |
0.535 |
|
| 2010 |
Beltrao P, Cagney G, Krogan NJ. Quantitative genetic interactions reveal biological modularity. Cell. 141: 739-45. PMID 20510918 DOI: 10.1016/J.Cell.2010.05.019 |
0.493 |
|
| 2009 |
Encinar JA, Fernandez-Ballester G, Sánchez IE, Hurtado-Gomez E, Stricher F, Beltrao P, Serrano L. ADAN: a database for prediction of protein-protein interaction of modular domains mediated by linear motifs. Bioinformatics (Oxford, England). 25: 2418-24. PMID 19602529 DOI: 10.1093/Bioinformatics/Btp424 |
0.692 |
|
| 2009 |
Beltrao P, Trinidad JC, Fiedler D, Roguev A, Lim WA, Shokat KM, Burlingame AL, Krogan NJ. Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species. Plos Biology. 7: e1000134. PMID 19547744 DOI: 10.1371/Journal.Pbio.1000134 |
0.579 |
|
| 2009 |
Fernandez-Ballester G, Beltrao P, Gonzalez JM, Song YH, Wilmanns M, Valencia A, Serrano L. Structure-based prediction of the Saccharomyces cerevisiae SH3-ligand interactions. Journal of Molecular Biology. 388: 902-16. PMID 19324052 DOI: 10.1016/J.Jmb.2009.03.038 |
0.51 |
|
| 2009 |
Beltrao P, Trinidad JC, Fiedler D, Roguev A, Lim WA, Shokat KM, Burlingame AL, Krogan NJ. Correction: Evolution of Phosphoregulation: Comparison of Phosphorylation Patterns across Yeast Species Plos Biology. 7. DOI: 10.1371/Annotation/66479889-5E57-4213-Bf25-C4E8Cf3D933B |
0.458 |
|
| 2008 |
Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, Raineri E, Garriga-Canut M, Serrano L. Evolvability and hierarchy in rewired bacterial gene networks. Nature. 452: 840-5. PMID 18421347 DOI: 10.1038/Nature06847 |
0.467 |
|
| 2008 |
Sánchez IE, Beltrao P, Stricher F, Schymkowitz J, Ferkinghoff-Borg J, Rousseau F, Serrano L. Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm. Plos Computational Biology. 4: e1000052. PMID 18389064 DOI: 10.1371/Journal.Pcbi.1000052 |
0.696 |
|
| 2008 |
Kiel C, Beltrao P, Serrano L. Analyzing protein interaction networks using structural information. Annual Review of Biochemistry. 77: 415-41. PMID 18304007 DOI: 10.1146/Annurev.Biochem.77.062706.133317 |
0.571 |
|
| 2007 |
Beltrao P, Kiel C, Serrano L. Structures in systems biology. Current Opinion in Structural Biology. 17: 378-84. PMID 17574836 DOI: 10.1016/J.Sbi.2007.05.005 |
0.455 |
|
| 2007 |
Kiel C, Foglierini M, Kuemmerer N, Beltrao P, Serrano L. A genome-wide Ras-effector interaction network. Journal of Molecular Biology. 370: 1020-32. PMID 17544445 DOI: 10.1016/J.Jmb.2007.05.015 |
0.509 |
|
| 2007 |
Beltrao P, Serrano L. Specificity and evolvability in eukaryotic protein interaction networks. Plos Computational Biology. 3: e25. PMID 17305419 DOI: 10.1038/Npre.2007.26.1 |
0.58 |
|
| 2007 |
Beltrao P, Serrano L. Correction: Specificity and Evolvability in Eukaryotic Protein Interaction Networks Plos Computational Biology. 3: e70. DOI: 10.1371/Journal.Pcbi.0030070 |
0.476 |
|
| 2007 |
Beltrao P. The likelihood that two proteins interact might depend on the proteins’ age Nature Precedings. 2: 1-1. DOI: 10.1038/Npre.2007.22.1 |
0.404 |
|
| 2005 |
Beltrao P, Serrano L. Comparative genomics and disorder prediction identify biologically relevant SH3 protein interactions. Plos Computational Biology. 1: e26. PMID 16110343 DOI: 10.1371/Journal.Pcbi.0010026 |
0.556 |
|
| 2004 |
Ander M, Beltrao P, Di Ventura B, Ferkinghoff-Borg J, Foglierini M, Kaplan A, Lemerle C, Tomás-Oliveira I, Serrano L. SmartCell, a framework to simulate cellular processes that combines stochastic approximation with diffusion and localisation: analysis of simple networks Systems Biology. 1: 129-138. PMID 17052123 DOI: 10.1049/sb:20045017 |
0.367 |
|
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