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Hannes Braberg, Ph.D. - Publications

Affiliations: 
Biophysics University of California, San Francisco, San Francisco, CA 
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31 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Rathore U, Haas P, Easwar Kumar V, Hiatt J, Haas KM, Bouhaddou M, Swaney DL, Stevenson E, Zuliani-Alvarez L, McGregor MJ, Turner-Groth A, Ochieng' Olwal C, Bediako Y, Braberg H, Soucheray M, et al. CRISPR-Cas9 screen of E3 ubiquitin ligases identifies TRAF2 and UHRF1 as regulators of HIV latency in primary human T cells. Mbio. e0222223. PMID 38411080 DOI: 10.1128/mbio.02222-23  0.675
2023 Haas KM, McGregor MJ, Bouhaddou M, Polacco BJ, Kim EY, Nguyen TT, Newton BW, Urbanowski M, Kim H, Williams MAP, Rezelj VV, Hardy A, Fossati A, Stevenson EJ, Sukerman E, ... ... Braberg H, et al. Proteomic and genetic analyses of influenza A viruses identify pan-viral host targets. Nature Communications. 14: 6030. PMID 37758692 DOI: 10.1038/s41467-023-41442-z  0.73
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, ... ... Braberg H, et al. Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 35332335 DOI: 10.1038/s41586-022-04653-w  0.725
2022 Echeverria I, Braberg H, Krogan NJ, Sali A. Structure snapshot: Integrative structure determination of histones H3 and H4 using genetic interactions. The Febs Journal. PMID 35298864 DOI: 10.1111/febs.16435  0.494
2022 Braberg H, Echeverria I, Kaake RM, Sali A, Krogan NJ. From systems to structure - using genetic data to model protein structures. Nature Reviews. Genetics. PMID 35013567 DOI: 10.1038/s41576-021-00441-w  0.528
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, ... ... Braberg H, et al. Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 34942634 DOI: 10.1038/s41586-021-04352-y  0.761
2021 Perica T, Mathy CJP, Xu J, Jang GΜ, Zhang Y, Kaake R, Ollikainen N, Braberg H, Swaney DL, Lambright DG, Kelly MJS, Krogan NJ, Kortemme T. Systems-level effects of allosteric perturbations to a model molecular switch. Nature. PMID 34646016 DOI: 10.1038/s41586-021-03982-6  0.505
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, 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  0.754
2021 Shiver AL, Osadnik H, Peters JM, Mooney RA, Wu PI, Henry KK, Braberg H, Krogan NJ, Hu JC, Landick R, Huang KC, Gross CA. Chemical-genetic interrogation of RNA polymerase mutants reveals structure-function relationships and physiological tradeoffs. Molecular Cell. 81: 2201-2215.e9. PMID 34019789 DOI: 10.1016/j.molcel.2021.04.027  0.519
2020 Braberg H, Echeverria I, Bohn S, Cimermancic P, Shiver A, Alexander R, Xu J, Shales M, Dronamraju R, Jiang S, Dwivedi G, Bogdanoff D, Chaung KK, Hüttenhain R, Wang S, et al. Genetic interaction mapping informs integrative structure determination of protein complexes. Science (New York, N.Y.). 370. PMID 33303586 DOI: 10.1126/science.aaz4910  0.516
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, 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  0.771
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, ... ... Braberg H, 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  0.759
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, ... ... Braberg H, et al. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. PMID 32353859 DOI: 10.1038/S41586-020-2286-9  0.756
2019 Echeverria I, Braberg H, Cimermancic P, Pellarin R, Schneidman D, Shiver A, Gross C, Krogan N, Sali A. Modeling of Protein Complex Architectures using Combinatorial Genetic Perturbations Biophysical Journal. 116: 419a-420a. DOI: 10.1016/J.Bpj.2018.11.2261  0.524
2018 Meza Gutierrez F, Simsek D, Mizrak A, Deutschbauer A, Braberg H, Johnson J, Xu J, Shales M, Nguyen M, Tamse-Kuehn R, Palm C, Steinmetz LM, Krogan NJ, Toczyski DP. Genetic analysis reveals functions of atypical polyubiquitin chains. Elife. 7. PMID 30547882 DOI: 10.7554/Elife.42955  0.545
2018 Gutierrez FM, Simsek D, Mizrak A, Deutschbauer A, Braberg H, Johnson J, Xu J, Shales M, Nguyen M, Tamse-Kuehn R, Palm C, Steinmetz LM, Krogan NJ, Toczyski DP. Author response: Genetic analysis reveals functions of atypical polyubiquitin chains Elife. DOI: 10.7554/Elife.42955.022  0.491
2016 Janke R, Kong J, Braberg H, Cantin G, Yates JR, Krogan NJ, Heyer WD. Nonsense-mediated decay regulates key components of homologous recombination. Nucleic Acids Research. PMID 27001511 DOI: 10.1093/Nar/Gkw182  0.522
2014 Braberg H, Alexander R, Shales M, Xu J, Franks-Skiba KE, Wu Q, Haber JE, Krogan NJ. Quantitative analysis of triple-mutant genetic interactions. Nature Protocols. 9: 1867-81. PMID 25010907 DOI: 10.1038/Nprot.2014.127  0.544
2014 Braberg H, Moehle EA, Shales M, Guthrie C, Krogan NJ. Genetic interaction analysis of point mutations enables interrogation of gene function at a residue-level resolution: exploring the applications of high-resolution genetic interaction mapping of point mutations. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 36: 706-13. PMID 24842270 DOI: 10.1002/Bies.201400044  0.567
2014 Moehle EA, Braberg H, Krogan NJ, Guthrie C. Adventures in time and space: splicing efficiency and RNA polymerase II elongation rate. Rna Biology. 11: 313-9. PMID 24717535 DOI: 10.4161/Rna.28646  0.475
2013 Braberg H, Jin H, Moehle EA, Chan YA, Wang S, Shales M, Benschop JJ, Morris JH, Qiu C, Hu F, Tang LK, Fraser JS, Holstege FC, Hieter P, Guthrie C, et al. From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II. Cell. 154: 775-88. PMID 23932120 DOI: 10.1016/J.Cell.2013.07.033  0.542
2013 Surma MA, Klose C, Peng D, Shales M, Mrejen C, Stefanko A, Braberg H, Gordon DE, Vorkel D, Ejsing CS, Farese R, Simons K, Krogan NJ, Ernst R. A lipid E-MAP identifies Ubx2 as a critical regulator of lipid saturation and lipid bilayer stress. Molecular Cell. 51: 519-30. PMID 23891562 DOI: 10.1016/J.Molcel.2013.06.014  0.493
2013 Haber JE, Braberg H, Wu Q, Alexander R, Haase J, Ryan C, Lipkin-Moore Z, Franks-Skiba KE, Johnson T, Shales M, Lenstra TL, Holstege FC, Johnson JR, Bloom K, Krogan NJ. Systematic triple-mutant analysis uncovers functional connectivity between pathways involved in chromosome regulation. Cell Reports. 3: 2168-78. PMID 23746449 DOI: 10.1016/J.Celrep.2013.05.007  0.541
2012 Braberg H, Webb BM, Tjioe E, Pieper U, Sali A, Madhusudhan MS. SALIGN: a web server for alignment of multiple protein sequences and structures. Bioinformatics (Oxford, England). 28: 2072-3. PMID 22618536 DOI: 10.1093/Bioinformatics/Bts302  0.313
2012 Fuchs SM, Kizer KO, Braberg H, Krogan NJ, Strahl BD. RNA polymerase II carboxyl-terminal domain phosphorylation regulates protein stability of the Set2 methyltransferase and histone H3 di- and trimethylation at lysine 36. The Journal of Biological Chemistry. 287: 3249-56. PMID 22157004 DOI: 10.1074/Jbc.M111.273953  0.505
2010 Mehta M, Braberg H, Wang S, Lozsa A, Shales M, Solache A, Krogan NJ, Keogh MC. Individual lysine acetylations on the N terminus of Saccharomyces cerevisiae H2A.Z are highly but not differentially regulated. The Journal of Biological Chemistry. 285: 39855-65. PMID 20952395 DOI: 10.1074/Jbc.M110.185967  0.495
2010 Aguilar PS, Fröhlich F, Rehman M, Shales M, Ulitsky I, Olivera-Couto A, Braberg H, Shamir R, Walter P, Mann M, Ejsing CS, Krogan NJ, Walther TC. A plasma-membrane E-MAP reveals links of the eisosome with sphingolipid metabolism and endosomal trafficking. Nature Structural & Molecular Biology. 17: 901-8. PMID 20526336 DOI: 10.1038/Nsmb.1829  0.492
2009 Fiedler D, Braberg H, Mehta M, Chechik G, Cagney G, Mukherjee P, Silva AC, Shales M, Collins SR, van Wageningen S, Kemmeren P, Holstege FC, Weissman JS, Keogh MC, Koller D, et al. Functional organization of the S. cerevisiae phosphorylation network. Cell. 136: 952-63. PMID 19269370 DOI: 10.1016/J.Cell.2008.12.039  0.551
2008 Typas A, Nichols RJ, Siegele DA, Shales M, Collins SR, Lim B, Braberg H, Yamamoto N, Takeuchi R, Wanner BL, Mori H, Weissman JS, Krogan NJ, Gross CA. High-throughput, quantitative analyses of genetic interactions in E. coli. Nature Methods. 5: 781-7. PMID 19160513 DOI: 10.1038/Nmeth.1240  0.545
2008 Wilmes GM, Bergkessel M, Bandyopadhyay S, Shales M, Braberg H, Cagney G, Collins SR, Whitworth GB, Kress TL, Weissman JS, Ideker T, Guthrie C, Krogan NJ. A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing. Molecular Cell. 32: 735-46. PMID 19061648 DOI: 10.1016/J.Molcel.2008.11.012  0.539
2006 Davis FP, Braberg H, Shen MY, Pieper U, Sali A, Madhusudhan MS. Protein complex compositions predicted by structural similarity. Nucleic Acids Research. 34: 2943-52. PMID 16738133 DOI: 10.1093/Nar/Gkl353  0.352
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