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Differential genetic interactions of yeast stress response MAPK pathways

Autor: Krogan, Nevan, Shokat, Kevan, Lim, Wendell, Martin, H, Shales, M, Fernandez-Piñar, P, Wei, P, Molina, M, Fiedler, D, Shokat, KM, Beltrao, P, Krogan, NJ

Publikováno v: Krogan, Nevan; Shokat, Kevan; Lim, Wendell; Martin, H; Shales, M; Fernandez-Piñar, P; et al.(2015). Differential genetic interactions of yeast stress response MAPK pathways. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/4v13v08q

© 2015 The Authors.Abstract Genetic interaction screens have been applied with great success in several organisms to study gene function and the genetic architecture of the cell. However, most studies have been performed under optimal growth conditi

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Genetic Interaction Mapping Reveals a Role for the SWI/SNF Nucleosome Remodeler in Spliceosome Activation in Fission Yeast

Autor: Krogan, Nevan, Guthrie, Christine, Patrick, KL, Ryan, CJ, Xu, J, Lipp, JJ, Nissen, KE, Roguev, A, Shales, M, Krogan, NJ

Publikováno v: Krogan, Nevan; Guthrie, Christine; Patrick, KL; Ryan, CJ; Xu, J; Lipp, JJ; et al.(2015). Genetic Interaction Mapping Reveals a Role for the SWI/SNF Nucleosome Remodeler in Spliceosome Activation in Fission Yeast. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/3464g14t

© 2015 Patrick et al.Although numerous regulatory connections between pre-mRNA splicing and chromatin have been demonstrated, the precise mechanisms by which chromatin factors influence spliceosome assembly and/or catalysis remain unclear. To probe

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Prediction of Functionally Important Phospho-Regulatory Events in Xenopus laevis Oocytes

Autor: Sali, Andrej, Krogan, Nevan, Johnson, JR, Santos, SD, Johnson, T, Pieper, U, Strumillo, M, Wagih, O, Krogan, NJ, Beltrao, P

Publikováno v: Sali, Andrej; Krogan, Nevan; Johnson, JR; Santos, SD; Johnson, T; Pieper, U; et al.(2015). Prediction of Functionally Important Phospho-Regulatory Events in Xenopus laevis Oocytes. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/5bp2x1dm

© 2015 Johnson et al.The African clawed frog Xenopus laevis is an important model organism for studies in developmental and cell biology, including cell-signaling. However, our knowledge of X. laevis protein post-translational modifications remains

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Lineage-Specific Viral Hijacking of Non-canonical E3Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity

Publikováno v: Kane, JR; Kane, JR; Kane, JR; Stanley, DJ; Hultquist, JF; Hultquist, JF; et al.(2014). Lineage-Specific Viral Hijacking of Non-canonical E3Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity. Cell Reports. doi: 10.1016/j.celrep.2015.04.038. UCSF: Retrieved from: http://www.escholarship.org/uc/item/3tn186pm

© 2015 The Authors. HIV-1 encodes the accessory protein Vif, which hijacks a host Cullin-RING ubiquitin ligase (CRL) complex as well as the non-canonical cofactor CBFβ, to antagonize APOBEC3 antiviral proteins. Non-canonical cofactor recruitment to

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Cullin E3 ligases and their rewiring by viral factors

Autor: Krogan, Nevan, Craik, Charles, Mahon, C, Krogan, NJ, Craik, CS, Pick, E

Publikováno v: Krogan, Nevan; Craik, Charles; Mahon, C; Krogan, NJ; Craik, CS; & Pick, E. (2014). Cullin E3 ligases and their rewiring by viral factors.. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/3xg8p11t

The ability of viruses to subvert host pathways is central in disease pathogenesis. Over the past decade, a critical role for the Ubiquitin Proteasome System (UPS) in counteracting host immune factors during viral infection has emerged. This countera

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Conditional genetic interactions of RTT107, SLX4, and HRQ1 reveal dynamic networks upon DNA damage in S. cerevisiae

Autor: Krogan, Nevan, Leung, GP, Aristizabal, MJ, Krogan, NJ, Kobor, MS

Publikováno v: Krogan, Nevan; Leung, GP; Aristizabal, MJ; Krogan, NJ; & Kobor, MS. (2014). Conditional genetic interactions of RTT107, SLX4, and HRQ1 reveal dynamic networks upon DNA damage in S. cerevisiae. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/8nh0s3qd

The DNA damage response (DDR) is a dynamic process that is crucial for protecting the cell from challenges to genome integrity. Although many genome-wide studies in Saccharomyces cerevisiae have identified genes that contribute to resistance to DNA-d

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Adventures in time and space: Splicing efficiency and RNA polymerase II elongation rate

Autor: Krogan, Nevan, Guthrie, Christine, Moehle, EA, Braberg, H, Krogan, NJ

Publikováno v: Krogan, Nevan; Guthrie, Christine; Moehle, EA; Braberg, H; & Krogan, NJ. (2014). Adventures in time and space: Splicing efficiency and RNA polymerase II elongation rate. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/2pd8k15t

Control of pre-mRNA splicing is a critical part of the eukaryotic gene expression process. Extensive evidence indicates that transcription and splicing are spatiotemporally coordinated and that most splicing events occur co-transcriptionally. A kinet

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All or nothing: Protein complexes flip essentiality between distantly related eukaryotes

Autor: Krogan, Nevan, Ryan, CJ, Krogan, NJ, Cunningham, P, Cagney, G

Publikováno v: Krogan, Nevan; Ryan, CJ; Krogan, NJ; Cunningham, P; & Cagney, G. (2013). All or nothing: Protein complexes flip essentiality between distantly related eukaryotes. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/7pk2m12z

In the budding yeast Saccharomyces cerevisiae, the subunits of any given protein complex are either mostly essential or mostly nonessential, suggesting that essentiality is a property of molecular machines rather than individual components. There are

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High-Throughput Genetic and Gene Expression Analysis of the RNAPII-CTD Reveals Unexpected Connections to SRB10/CDK8

Autor: Krogan, Nevan, Aristizabal, MJ, Negri, GL, Benschop, JJ, Holstege, FCP, Krogan, NJ, Kobor, MS

Publikováno v: Krogan, Nevan; Aristizabal, MJ; Negri, GL; Benschop, JJ; Holstege, FCP; Krogan, NJ; et al.(2013). High-Throughput Genetic and Gene Expression Analysis of the RNAPII-CTD Reveals Unexpected Connections to SRB10/CDK8. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/9nr0h4ks

The C-terminal domain (CTD) of RNA polymerase II (RNAPII) is composed of heptapeptide repeats, which play a key regulatory role in gene expression. Using genetic interaction, chromatin immunoprecipitation followed by microarrays (ChIP-on-chip) and mR

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

Autor: Krogan, Nevan, Beltrao, P, Bork, P, Krogan, NJ, Van, V

Publikováno v: Krogan, Nevan; Beltrao, P; Bork, P; Krogan, NJ; & Van, V. (2013). Evolution and functional cross-talk of protein post-translational modifications. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/4399b8zt

© 2013 The Authors.Protein post-translational modifications (PTMs) allow the cell to regulate protein activity and play a crucial role in the response to changes in external conditions or internal states. Advances in mass spectrometry now enable pro

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