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Nevan J. Krogan - Publications

Affiliations: 
University of California, San Francisco, San Francisco, CA 
Website:
http://kroganlab.ucsf.edu/

292 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
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, ... ... Krogan NJ, 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  0.633
2022 Hiatt J, Hultquist JF, McGregor MJ, Bouhaddou M, Leenay RT, Simons LM, Young JM, Haas P, Roth TL, Tobin V, Wojcechowskyj JA, Woo JM, Rathore U, Cavero DA, Shifrut E, ... ... Krogan NJ, et al. A functional map of HIV-host interactions in primary human T cells. Nature Communications. 13: 1752. PMID 35365639 DOI: 10.1038/s41467-022-29346-w  0.696
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, ... ... Krogan NJ, et al. Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 35332335 DOI: 10.1038/s41586-022-04653-w  0.754
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  0.731
2022 Walz AC, Van De Vyver AJ, Yu L, Birtwistle MR, Krogan NJ, Bouhaddou M. Leveraging modeling and simulation to optimize the therapeutic window for epigenetic modifier drugs. Pharmacology & Therapeutics. 235: 108162. PMID 35189161 DOI: 10.1016/j.pharmthera.2022.108162  0.766
2022 Escalera A, Gonzalez-Reiche AS, Aslam S, Mena I, Laporte M, Pearl RL, Fossati A, Rathnasinghe R, Alshammary H, van de Guchte A, Farrugia K, Qin Y, Bouhaddou M, Kehrer T, Zuliani-Alvarez L, ... ... Krogan NJ, et al. Mutations in SARS-CoV-2 variants of concern link to increased spike cleavage and virus transmission. Cell Host & Microbe. PMID 35150638 DOI: 10.1016/j.chom.2022.01.006  0.684
2022 Walter M, Chen IP, Vallejo-Gracia A, Kim IJ, Bielska O, Lam VL, Hayashi JM, Cruz A, Shah S, Gross JD, Krogan NJ, Schilling B, Ott M, Verdin E. SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein. Biorxiv : the Preprint Server For Biology. PMID 35018374 DOI: 10.1101/2022.01.04.474979  0.316
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  0.735
2022 Varona JF, Landete P, Lopez-Martin JA, Estrada V, Paredes R, Guisado-Vasco P, Fernandez de Orueta L, Torralba M, Fortun J, Vates R, Barberan J, Clotet B, Ancochea J, Carnevali D, Cabello N, ... ... Krogan NJ, et al. Preclinical and randomized phase I studies of plitidepsin in adults hospitalized with COVID-19. Life Science Alliance. 5. PMID 35012962 DOI: 10.26508/lsa.202101200  0.659
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, ... ... Krogan NJ, et al. Evolution of enhanced innate immune evasion by SARS-CoV-2. Nature. PMID 34942634 DOI: 10.1038/s41586-021-04352-y  0.789
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  0.732
2021 Swaney DL, Ramms DJ, Wang Z, Park J, Goto Y, Soucheray M, Bhola N, Kim K, Zheng F, Zeng Y, McGregor M, Herrington KA, O'Keefe R, Jin N, VanLandingham NK, ... ... Krogan NJ, et al. A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity. Science (New York, N.Y.). 374: eabf2911. PMID 34591642 DOI: 10.1126/science.abf2911  0.681
2021 Kim M, Park J, Bouhaddou M, Kim K, Rojc A, Modak M, Soucheray M, McGregor MJ, O'Leary P, Wolf D, Stevenson E, Foo TK, Mitchell D, Herrington KA, Muñoz DP, ... ... Krogan NJ, et al. A protein interaction landscape of breast cancer. Science (New York, N.Y.). 374: eabf3066. PMID 34591612 DOI: 10.1126/science.abf3066  0.669
2021 Bouhaddou M, Lee RH, Li H, Bhola NE, O'Keefe RA, Naser M, Zhu TR, Nwachuku K, Duvvuri U, Olshen AB, Roy R, Hechmer A, Bolen J, Keysar SB, Jimeno A, ... ... Krogan NJ, et al. Caveolin-1 and Sox-2 are predictive biomarkers of cetuximab response in head and neck cancer. Jci Insight. PMID 34546978 DOI: 10.1172/jci.insight.151982  0.672
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, ... ... Krogan NJ, 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  0.78
2021 Varona JF, Landete P, Lopez-Martin JA, Estrada V, Paredes R, Guisado-Vasco P, de Orueta LF, Torralba M, Fortún J, Vates R, Barberán J, Clotet B, Ancochea J, Carnevali D, Cabello N, ... ... Krogan NJ, et al. Plitidepsin has a positive therapeutic index in adult patients with COVID-19 requiring hospitalization. Medrxiv : the Preprint Server For Health Sciences. PMID 34075384 DOI: 10.1101/2021.05.25.21257505  0.656
2021 Verba K, Gupta M, Azumaya C, Moritz M, Pourmal S, Diallo A, Merz G, Jang G, Bouhaddou M, Fossati A, Brilot A, Diwanji D, Hernandez E, Herrera N, Kratochvil H, ... ... Krogan N, et al. CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes. Research Square. PMID 34031651 DOI: 10.21203/rs.3.rs-515215/v1  0.738
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  0.737
2021 Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, ... ... Krogan NJ, et al. CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes. Biorxiv : the Preprint Server For Biology. PMID 34013269 DOI: 10.1101/2021.05.10.443524  0.738
2021 Reuschl AK, Thorne L, Zuliani Alvarez L, Bouhaddou M, Obernier K, Soucheray M, Turner J, Fabius J, Nguyen GT, Swaney D, Rosales R, White KM, Aviles P, Kirby IT, Melnyk JE, ... ... Krogan NJ, et al. Host-directed therapies against early-lineage SARS-CoV-2 retain efficacy against B.1.1.7 variant. Biorxiv : the Preprint Server For Biology. PMID 33501437 DOI: 10.1101/2021.01.24.427991  0.694
2021 White KM, Rosales R, Yildiz S, Kehrer T, Miorin L, Moreno E, Jangra S, Uccellini MB, Rathnasinghe R, Coughlan L, Martinez-Romero C, Batra J, Rojc A, Bouhaddou M, Fabius JM, ... ... Krogan NJ, et al. Plitidepsin has potent preclinical efficacy against SARS-CoV-2 by targeting the host protein eEF1A. Science (New York, N.Y.). PMID 33495306 DOI: 10.1126/science.abf4058  0.698
2020 Wang R, Simoneau CR, Kulsuptrakul J, Bouhaddou M, Travisano KA, Hayashi JM, Carlson-Stevermer J, Zengel JR, Richards CM, Fozouni P, Oki J, Rodriguez L, Joehnk B, Walcott K, Holden K, ... ... Krogan NJ, et al. Genetic Screens Identify Host Factors for SARS-CoV-2 and Common Cold Coronaviruses. Cell. PMID 33333024 DOI: 10.1016/j.cell.2020.12.004  0.699
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, ... ... Krogan NJ, 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  0.744
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, ... ... Krogan NJ, 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  0.809
2020 Wang R, Simoneau CR, Kulsuptrakul J, Bouhaddou M, Travisano K, Hayashi JM, Carlson-Stevermer J, Oki J, Holden K, Krogan NJ, Ott M, Puschnik AS. Functional genomic screens identify human host factors for SARS-CoV-2 and common cold coronaviruses. Biorxiv : the Preprint Server For Biology. PMID 32995787 DOI: 10.1101/2020.09.24.312298  0.696
2020 Langer S, Yin X, Diaz A, Portillo AJ, Gordon DE, Rogers UH, Marlett JM, Krogan NJ, Young JAT, Pache L, Chanda SK. The E3 Ubiquitin-Protein Ligase Cullin 3 Regulates HIV-1 Transcription. Cells. 9. PMID 32882949 DOI: 10.3390/Cells9092010  0.339
2020 Kwon Y, Kaake RM, Echeverria I, Suarez M, Karimian Shamsabadi M, Stoneham C, Ramirez PW, Kress J, Singh R, Sali A, Krogan N, Guatelli J, Jia X. Structural basis of CD4 downregulation by HIV-1 Nef. Nature Structural & Molecular Biology. PMID 32719457 DOI: 10.1038/S41594-020-0463-Z  0.309
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, ... ... Krogan NJ, et al. The Global Phosphorylation Landscape of SARS-CoV-2 Infection. Cell. PMID 32645325 DOI: 10.1016/J.Cell.2020.06.034  0.783
2020 Giraldo MI, Xia H, Aguilera-Aguirre L, Hage A, van Tol S, Shan C, Xie X, Sturdevant GL, Robertson SJ, McNally KL, Meade-White K, Azar SR, Rossi SL, Maury W, Woodson M, ... ... Krogan NJ, et al. Envelope protein ubiquitination drives entry and pathogenesis of Zika virus. Nature. PMID 32641828 DOI: 10.1038/S41586-020-2457-8  0.304
2020 Alme EB, Stevenson E, Krogan NJ, Swaney DL, Toczyski DP. The kinase Isr1 negatively regulates hexosamine biosynthesis in S. cerevisiae. Plos Genetics. 16: e1008840. PMID 32579556 DOI: 10.1371/Journal.Pgen.1008840  0.399
2020 Ho JSY, Angel M, Ma Y, Sloan E, Wang G, Martinez-Romero C, Alenquer M, Roudko V, Chung L, Zheng S, Chang M, Fstkchyan Y, Clohisey S, Dinan AM, Gibbs J, ... ... Krogan N, et al. Hybrid Gene Origination Creates Human-Virus Chimeric Proteins during Infection. Cell. PMID 32559462 DOI: 10.1016/J.Cell.2020.05.035  0.355
2020 Coles GL, Cristea S, Webber JT, Levin RS, Moss SM, He A, Sangodkar J, Hwang YC, Arand J, Drainas AP, Mooney NA, Demeter J, Spradlin JN, Mauch B, Le V, ... ... Krogan NJ, et al. Unbiased Proteomic Profiling Uncovers a Targetable GNAS/PKA/PP2A Axis in Small Cell Lung Cancer Stem Cells. Cancer Cell. PMID 32531271 DOI: 10.1016/J.Ccell.2020.05.003  0.327
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, ... ... Krogan NJ, 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  0.793
2020 Tutuncuoglu B, Cakir M, Batra J, Bouhaddou M, Eckhardt M, Gordon DE, Krogan NJ. The Landscape of Human Cancer Proteins Targeted by SARS-CoV-2. Cancer Discovery. PMID 32444466 DOI: 10.1158/2159-8290.Cd-20-0559  0.723
2020 Du Y, Hultquist JF, Zhou Q, Olson A, Tseng Y, Zhang TH, Hong M, Tang K, Chen L, Meng X, McGregor MJ, Dai L, Gong D, Martin-Sancho L, Chanda S, ... ... Krogan NJ, et al. mRNA display with library of even-distribution reveals cellular interactors of influenza virus NS1. Nature Communications. 11: 2449. PMID 32415096 DOI: 10.1038/S41467-020-16140-9  0.379
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, ... ... Krogan NJ, et al. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. PMID 32353859 DOI: 10.1038/S41586-020-2286-9  0.794
2020 Gordon DE, Watson A, Roguev A, Zheng S, Jang GM, Kane J, Xu J, Guo JZ, Stevenson E, Swaney DL, Franks-Skiba K, Verschueren E, Shales M, Crosby DC, Frankel AD, ... ... Krogan NJ, et al. A Quantitative Genetic Interaction Map of HIV Infection. Molecular Cell. PMID 32084337 DOI: 10.1016/J.Molcel.2020.02.004  0.354
2020 Budzik JM, Swaney DL, Jimenez-Morales D, Johnson JR, Garelis NE, Repasy T, Roberts AW, Popov LM, Parry TJ, Pratt D, Ideker T, Krogan NJ, Cox JS. Dynamic post-translational modification profiling of -infected primary macrophages. Elife. 9. PMID 31951200 DOI: 10.7554/Elife.51461  0.332
2020 Antoine M, Patrick KL, Soret J, Duc P, Rage F, Cacciottolo R, Nissen KE, Cauchi RJ, Krogan NJ, Guthrie C, Gachet Y, Bordonné R. Splicing Defects of the Profilin Gene Alter Actin Dynamics in an S. pombe SMN Mutant. Iscience. 23: 100809. PMID 31927482 DOI: 10.1016/J.Isci.2019.100809  0.311
2020 Krogan N. Abstract IA03: Systems approaches reveal shared pathways affected in SARS-CoV-2 infection and cancer Clinical Cancer Research. 26. DOI: 10.1158/1557-3265.Covid-19-Ia03  0.39
2020 Zheng F, Ono K, Silva E, Swaney D, Kim M, Shangguan J, Pratt D, Nan X, Krogan N, Ideker T. Abstract PR14: A multiscale map of recurrently mutated systems in cancer Cancer Research. 80. DOI: 10.1158/1538-7445.Camodels2020-Pr14  0.34
2020 Kratz A, Zheng F, Kyu M, Krogan N, Ideker T. Abstract PHB03: A hierarchical model of DNA repair inferred from omics-scale genetic interaction data reveals the dynamics of DNA damage induction Cancer Research. 80. DOI: 10.1158/1538-7445.Camodels2020-Phb03  0.353
2020 Gordan JD, Pitea A, Eckhardt M, Jang G, Turnham RE, Choi ALM, Dollen JV, Lim HC, Thayer EF, Kelley RK, Swaney DL, Zhang W, Theis FJ, Ideker T, Krogan NJ. Abstract 4891: Hepatitis B virus remodels host protein interaction networks to generate distinct cellular dependencies Cancer Research. 80: 4891-4891. DOI: 10.1158/1538-7445.Am2020-4891  0.372
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, et al. The functional landscape of the human phosphoproteome. Nature Biotechnology. PMID 31819260 DOI: 10.1038/S41587-019-0344-3  0.685
2019 Link N, Chung H, Jolly A, Withers M, Tepe B, Arenkiel BR, Shah PS, Krogan NJ, Aydin H, Geckinli BB, Tos T, Isikay S, Tuysuz B, Mochida GH, Thomas AX, et al. Mutations in ANKLE2, a ZIKA Virus Target, Disrupt an Asymmetric Cell Division Pathway in Drosophila Neuroblasts to Cause Microcephaly. Developmental Cell. PMID 31735666 DOI: 10.1016/J.Devcel.2019.10.009  0.39
2019 Tutuncuoglu B, Krogan NJ. Mapping genetic interactions in cancer: a road to rational combination therapies. Genome Medicine. 11: 62. PMID 31640753 DOI: 10.1186/S13073-019-0680-4  0.39
2019 Jeng EE, Bhadkamkar V, Ibe NU, Gause H, Jiang L, Chan J, Jian R, Jimenez-Morales D, Stevenson E, Krogan NJ, Swaney DL, Snyder MP, Mukherjee S, Bassik MC. Systematic Identification of Host Cell Regulators of Legionella pneumophila Pathogenesis Using a Genome-wide CRISPR Screen. Cell Host & Microbe. PMID 31540829 DOI: 10.1016/J.Chom.2019.08.017  0.347
2019 Diep J, Ooi YS, Wilkinson AW, Peters CE, Foy E, Johnson JR, Zengel J, Ding S, Weng KF, Laufman O, Jang G, Xu J, Young T, Verschueren E, Kobluk KJ, ... ... Krogan NJ, et al. Enterovirus pathogenesis requires the host methyltransferase SETD3. Nature Microbiology. PMID 31527793 DOI: 10.1038/S41564-019-0551-1  0.347
2019 Stanley SY, Borges AL, Chen KH, Swaney DL, Krogan NJ, Bondy-Denomy J, Davidson AR. Anti-CRISPR-Associated Proteins Are Crucial Repressors of Anti-CRISPR Transcription. Cell. PMID 31474367 DOI: 10.1016/J.Cell.2019.07.046  0.404
2019 Chatterjee N, Pazarentzos E, Mayekar MK, Gui P, Allegakoen DV, Hrustanovic G, Olivas V, Lin L, Verschueren E, Johnson JR, Hofree M, Yan JJ, Newton BW, Dollen JV, Earnshaw CH, ... ... Krogan NJ, et al. Synthetic Essentiality of Metabolic Regulator PDHK1 in PTEN-Deficient Cells and Cancers. Cell Reports. 28: 2317-2330.e8. PMID 31461649 DOI: 10.1016/J.Celrep.2019.07.063  0.357
2019 Lopez ML, Lo M, Kung JE, Dudkiewicz M, Jang GM, Von Dollen J, Johnson JR, Krogan NJ, Pawłowski K, Jura N. PEAK3/C19orf35 pseudokinase, a new NFK3 kinase family member, inhibits CrkII through dimerization. Proceedings of the National Academy of Sciences of the United States of America. PMID 31311869 DOI: 10.1073/Pnas.1906360116  0.31
2019 Bouhaddou M, Eckhardt M, Chi Naing ZZ, Kim M, Ideker T, Krogan NJ. Mapping the protein-protein and genetic interactions of cancer to guide precision medicine. Current Opinion in Genetics & Development. 54: 110-117. PMID 31288129 DOI: 10.1016/J.Gde.2019.04.005  0.731
2019 Igbaria A, Merksamer PI, Trusina A, Tilahun F, Johnson JR, Brandman O, Krogan NJ, Weissman JS, Papa FR. Chaperone-mediated reflux of secretory proteins to the cytosol during endoplasmic reticulum stress. Proceedings of the National Academy of Sciences of the United States of America. PMID 31101715 DOI: 10.1073/Pnas.1904516116  0.31
2019 Ali I, Ruiz DG, Ni Z, Johnson JR, Zhang H, Li PC, Khalid MM, Conrad RJ, Guo X, Min J, Greenblatt J, Jacobson M, Krogan NJ, Ott M. Crosstalk between RNA Pol II C-Terminal Domain Acetylation and Phosphorylation via RPRD Proteins. Molecular Cell. PMID 31054975 DOI: 10.1016/J.Molcel.2019.04.008  0.598
2019 Li M, Johnson JR, Truong B, Kim G, Weinbren N, Dittmar M, Shah PS, Von Dollen J, Newton BW, Jang GM, Krogan NJ, Cherry S, Ramage H. Identification of antiviral roles for the exon-junction complex and nonsense-mediated decay in flaviviral infection. Nature Microbiology. PMID 30833725 DOI: 10.1038/S41564-019-0375-Z  0.37
2019 Hota SK, Johnson JR, Verschueren E, Thomas R, Blotnick AM, Zhu Y, Sun X, Pennacchio LA, Krogan NJ, Bruneau BG. Dynamic BAF chromatin remodeling complex subunit inclusion promotes temporally distinct gene expression programs in cardiogenesis. Development (Cambridge, England). PMID 30814119 DOI: 10.1242/Dev.174086  0.334
2019 Hultquist JF, Hiatt J, Schumann K, McGregor MJ, Roth TL, Haas P, Doudna JA, Marson A, Krogan NJ. CRISPR-Cas9 genome engineering of primary CD4 T cells for the interrogation of HIV-host factor interactions. Nature Protocols. 14: 1-27. PMID 30559373 DOI: 10.1038/S41596-018-0069-7  0.306
2019 Perez-Bermejo JA, Judge LM, Wu K, Jensen CL, Kaake RM, Swaney D, So P, Krogan NJ, Conklin BR. Abstract 934: Physical and Genetic Interaction Analyses in Human Pluripotent Stem Cell-Derived Cardiomyocytes to Study Protein Quality Control Disease in the Heart Circulation Research. 125. DOI: 10.1161/Res.125.Suppl_1.934  0.328
2019 Kim M, Kim K, Tutuncuoglu B, Soucheray M, Swaney D, Zheng F, Park J, O'Leary P, Coppé J, Veer Lv', Ashworth A, Ideker T, Krogan N. Abstract P6-06-01: Analyzing the physical and functional protein interaction landscape of breast cancer Cancer Research. 79. DOI: 10.1158/1538-7445.Sabcs18-P6-06-01  0.399
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  0.731
2018 Weinman LM, Running KLD, Carey NS, Stevenson EJ, Swaney DL, Chow BY, Krogan NJ, Krogan NT. TCO, a Putative Transcriptional Regulator in , Is a Target of the Protein Kinase CK2. International Journal of Molecular Sciences. 20. PMID 30597831 DOI: 10.3390/Ijms20010099  0.409
2018 Basler CF, Krogan NJ, Leung DW, Amarasinghe GK. Virus and host interactions critical for filoviral RNA synthesis as therapeutic targets. Antiviral Research. PMID 30550800 DOI: 10.1016/J.Antiviral.2018.12.006  0.359
2018 Shah PS, Link N, Jang GM, Sharp PP, Zhu T, Swaney DL, Johnson JR, Von Dollen J, Ramage HR, Satkamp L, Newton B, Hüttenhain R, Petit MJ, Baum T, Everitt A, ... ... Krogan NJ, et al. Comparative Flavivirus-Host Protein Interaction Mapping Reveals Mechanisms of Dengue and Zika Virus Pathogenesis. Cell. 175: 1931-1945.e18. PMID 30550790 DOI: 10.1016/J.Cell.2018.11.028  0.385
2018 Batra J, Hultquist JF, Liu D, Shtanko O, Von Dollen J, Satkamp L, Jang GM, Luthra P, Schwarz TM, Small GI, Arnett E, Anantpadma M, Reyes A, Leung DW, Kaake R, ... ... Krogan NJ, et al. Protein Interaction Mapping Identifies RBBP6 as a Negative Regulator of Ebola Virus Replication. Cell. 175: 1917-1930.e13. PMID 30550789 DOI: 10.1016/J.Cell.2018.08.044  0.393
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  0.751
2018 Bramasole L, Sinha A, Gurevich S, Radzinski M, Klein Y, Panat N, Gefen E, Rinaldi T, Jimenez-Morales D, Johnson J, Krogan NJ, Reis N, Reichmann D, Glickman MH, Pick E. Proteasome lid bridges mitochondrial stress with Cdc53/Cullin1 NEDDylation status. Redox Biology. 20: 533-543. PMID 30508698 DOI: 10.1016/J.Redox.2018.11.010  0.348
2018 Fontaine KA, Leon KE, Khalid MM, Tomar S, Jimenez-Morales D, Dunlap M, Kaye JA, Shah PS, Finkbeiner S, Krogan NJ, Ott M. The Cellular NMD Pathway Restricts Zika Virus Infection and Is Targeted by the Viral Capsid Protein. Mbio. 9. PMID 30401782 DOI: 10.1128/Mbio.02126-18  0.357
2018 Lao JP, Ulrich KM, Johnson JR, Newton BW, Vashisht AA, Wohlschlegel JA, Krogan NJ, Toczyski DP. The Yeast DNA Damage Checkpoint Kinase Rad53 Targets the Exoribonuclease, Xrn1. G3 (Bethesda, Md.). PMID 30377154 DOI: 10.1534/G3.118.200767  0.375
2018 Eckhardt M, Zhang W, Gross AM, Von Dollen J, Johnson JR, Franks-Skiba KE, Swaney DL, Johnson TL, Jang GM, Shah PS, Brand TM, Archambault J, Kreisberg JF, Grandis JR, Ideker T, ... Krogan NJ, et al. Multiple Routes to Oncogenesis are Promoted by the Human Papillomavirus-Host Protein Network. Cancer Discovery. PMID 30209081 DOI: 10.1158/2159-8290.Cd-17-1018  0.362
2018 Zhao N, Sebastiano V, Moshkina N, Mena N, Hultquist J, Jimenez-Morales D, Ma Y, Rialdi A, Albrecht R, Fenouil R, Sánchez-Aparicio MT, Ayllon J, Ravisankar S, Haddad B, Ho JSY, ... ... Krogan N, et al. Influenza virus infection causes global RNAPII termination defects. Nature Structural & Molecular Biology. PMID 30177761 DOI: 10.1038/S41594-018-0124-7  0.366
2018 Chen SH, Jang GM, Hüttenhain R, Gordon DE, Du D, Newton BW, Johnson JR, Hiatt J, Hultquist JF, Johnson TL, Liu YL, Burton LA, Ye J, Reichermeier KM, Stroud RM, ... ... Krogan NJ, et al. CRL4 targets Elongin C for ubiquitination and degradation to modulate CRL5 signaling. The Embo Journal. PMID 30166453 DOI: 10.15252/Embj.201797508  0.345
2018 Penn BH, Netter Z, Johnson JR, Von Dollen J, Jang GM, Johnson T, Ohol YM, Maher C, Bell SL, Geiger K, Golovkine G, Du X, Choi A, Parry T, Mohapatra BC, ... ... Krogan NJ, et al. An Mtb-Human Protein-Protein Interaction Map Identifies a Switch between Host Antiviral and Antibacterial Responses. Molecular Cell. 71: 637-648.e5. PMID 30118682 DOI: 10.1016/J.Molcel.2018.07.010  0.397
2018 Patrick KL, Wojcechowskyj JA, Bell SL, Riba MN, Jing T, Talmage S, Xu P, Cabello AL, Xu J, Shales M, Jimenez-Morales D, Ficht TA, de Figueiredo P, Samuel JE, Li P, ... Krogan NJ, et al. Quantitative Yeast Genetic Interaction Profiling of Bacterial Effector Proteins Uncovers a Role for the Human Retromer in Salmonella Infection. Cell Systems. PMID 30077634 DOI: 10.1016/J.Cels.2018.06.010  0.415
2018 Willsey AJ, Morris MT, Wang S, Willsey HR, Sun N, Teerikorpi N, Baum TB, Cagney G, Bender KJ, Desai TA, Srivastava D, Davis GW, Doudna J, Chang E, Sohal V, ... ... Krogan NJ, et al. The Psychiatric Cell Map Initiative: A Convergent Systems Biological Approach to Illuminating Key Molecular Pathways in Neuropsychiatric Disorders. Cell. 174: 505-520. PMID 30053424 DOI: 10.1016/J.Cell.2018.06.016  0.59
2018 Faust TB, Li Y, Bacon CW, Jang GM, Weiss A, Jayaraman B, Newton BW, Krogan NJ, D'Orso I, Frankel AD. The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation. Elife. 7. PMID 29845934 DOI: 10.7554/Elife.31879  0.334
2018 Streubel G, Watson A, Jammula SG, Scelfo A, Fitzpatrick DJ, Oliviero G, McCole R, Conway E, Glancy E, Negri GL, Dillon E, Wynne K, Pasini D, Krogan NJ, Bracken AP, et al. The H3K36me2 Methyltransferase Nsd1 Demarcates PRC2-Mediated H3K27me2 and H3K27me3 Domains in Embryonic Stem Cells. Molecular Cell. PMID 29606589 DOI: 10.1016/J.Molcel.2018.02.027  0.349
2018 Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, ... ... Krogan NJ, et al. How many human proteoforms are there? Nature Chemical Biology. 14: 206-214. PMID 29443976 DOI: 10.1038/Nchembio.2576  0.397
2018 Dornfeld D, Dudek AH, Vausselin T, Günther SC, Hultquist JF, Giese S, Khokhlova-Cubberley D, Chew YC, Krogan NJ, Garcia-Sastre A, Schwemmle M, Shaw ML. SMARCA2-regulated host cell factors are required for MxA restriction of influenza A viruses. Scientific Reports. 8: 2092. PMID 29391557 DOI: 10.1038/S41598-018-20458-2  0.361
2018 Binning JM, Smith AM, Hultquist JF, Craik CS, Caretta N, Campbell MG, Burton L, La Greca F, McGregor MJ, Ta HM, Bartholomeeusen K, Peterlin BM, Krogan NJ, Sevillano N, Cheng Y, et al. Fab-based inhibitors reveal ubiquitin independent functions for HIV Vif neutralization of APOBEC3 restriction factors. Plos Pathogens. 14: e1006830. PMID 29304101 DOI: 10.1371/Journal.Ppat.1006830  0.318
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  0.702
2018 Faust TB, Li Y, Bacon CW, Jang GM, Weiss A, Jayaraman B, Newton BW, Krogan NJ, D'Orso I, Frankel AD. Author response: The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation Elife. DOI: 10.7554/Elife.31879.027  0.303
2018 Kim M, Kim K, Soucheray M, Swaney D, Krogan N. Abstract B45: Studying the interactome of breast cancer: The cancer cell map initiative Molecular Cancer Research. 16. DOI: 10.1158/1557-3125.Advbc17-B45  0.344
2018 Kaushik S, Jang G, Hu H, Shah K, Zhao X, Jascur J, Dollen JV, Verschueren E, Johnson J, Krogan N, Bandyopadhyay S. Abstract 3297: A tyrosine kinase interactome reveals network states that guide the use of targeted therapies in cancer Cancer Research. 78: 3297-3297. DOI: 10.1158/1538-7445.Am2018-3297  0.34
2018 Costa EMD, Armaos G, Beaudry A, Richer C, Caron M, St-Onge P, Johnson J, Krogan N, Sai Y, Downey M, Sinnett D, McGraw S, Raynal NJ. Abstract 1381: Targeting histone acetyltransferases to reprogram high C-MYC expressing cancers Cancer Research. 78: 1381-1381. DOI: 10.1158/1538-7445.Am2018-1381  0.335
2018 Zheng F, Yu MK, Kim M, Ono K, Flagg M, Kreisberg JF, Krogan N, Ideker T. Abstract 1317: Multi-scale mapping of the physical and functional architecture of the cancer cell Cancer Research. 78: 1317-1317. DOI: 10.1158/1538-7445.Am2018-1317  0.321
2017 Sigg MA, Menchen T, Lee C, Johnson J, Jungnickel MK, Choksi SP, Garcia G, Busengdal H, Dougherty GW, Pennekamp P, Werner C, Rentzsch F, Florman HM, Krogan N, Wallingford JB, et al. Evolutionary Proteomics Uncovers Ancient Associations of Cilia with Signaling Pathways. Developmental Cell. 43: 744-762.e11. PMID 29257953 DOI: 10.1016/J.Devcel.2017.11.014  0.346
2017 Espinosa-Cantú A, Ascencio D, Herrera-Basurto S, Xu J, Roguev A, Krogan NJ, DeLuna A. Protein Moonlighting Revealed by Non-catalytic Phenotypes of Yeast Enzymes. Genetics. PMID 29127264 DOI: 10.1534/Genetics.117.300377  0.398
2017 Rujano MA, Cannata Serio M, Panasyuk G, Péanne R, Reunert J, Rymen D, Hauser V, Park JH, Freisinger P, Souche E, Guida MC, Maier EM, Wada Y, Jäger S, Krogan NJ, et al. Mutations in the X-linked ATP6AP2 cause a glycosylation disorder with autophagic defects. The Journal of Experimental Medicine. PMID 29127204 DOI: 10.1084/Jem.20170453  0.323
2017 Roguev A, Ryan CJ, Hartsuiker E, Krogan NJ. High-Throughput Quantitative Genetic Interaction Mapping in the Fission Yeast Schizosaccharomyces pombe. Cold Spring Harbor Protocols. PMID 28733404 DOI: 10.1101/Pdb.Top079905  0.383
2017 Judge LM, Perez-Bermejo JA, Truong A, Ribeiro AJ, Yoo JC, Jensen CL, Mandegar MA, Huebsch N, Kaake RM, So PL, Srivastava D, Pruitt BL, Krogan NJ, Conklin BR. A BAG3 chaperone complex maintains cardiomyocyte function during proteotoxic stress. Jci Insight. 2. PMID 28724793 DOI: 10.1172/Jci.Insight.94623  0.358
2017 Bharaj P, Atkins C, Luthra P, Giraldo MI, Dawes BE, Miorin L, Johnson JR, Krogan NJ, Basler CF, Freiberg AN, Rajsbaum R. The host E3-Ubiquitin ligase TRIM6 ubiquitinates the Ebola virus VP35 protein and promotes virus replication. Journal of Virology. PMID 28679761 DOI: 10.1128/Jvi.00833-17  0.36
2017 Gong D, Dai X, Xiao Y, Du Y, Chapa TJ, Johnson JR, Li X, Krogan NJ, Deng H, Wu TT, Sun R. Virus-like vesicles of Kaposi's sarcoma-associated herpesvirus activate lytic replication through triggering differentiation signaling. Journal of Virology. PMID 28515293 DOI: 10.1128/Jvi.00362-17  0.386
2017 Du D, Roguev A, Gordon DE, Chen M, Chen SH, Shales M, Shen JP, Ideker T, Mali P, Qi LS, Krogan NJ. Genetic interaction mapping in mammalian cells using CRISPR interference. Nature Methods. PMID 28481362 DOI: 10.1038/Nmeth.4286  0.436
2017 Rialdi A, Hultquist J, Jimenez-Morales D, Peralta Z, Campisi L, Fenouil R, Moshkina N, Wang ZZ, Laffleur B, Kaake RM, McGregor MJ, Haas K, Pefanis E, Albrecht RA, Pache L, ... ... Krogan N, et al. The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity. Cell. 169: 679-692.e14. PMID 28475896 DOI: 10.1016/J.Cell.2017.04.021  0.308
2017 Nissen KE, Homer CM, Ryan CJ, Shales M, Krogan NJ, Patrick KL, Guthrie C. The histone variant H2A.Z promotes splicing of weak introns. Genes & Development. 31: 688-701. PMID 28446597 DOI: 10.1101/Gad.295287.116  0.361
2017 Lobingier BT, Hüttenhain R, Eichel K, Miller KB, Ting AY, von Zastrow M, Krogan NJ. An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells. Cell. 169: 350-360.e12. PMID 28388416 DOI: 10.1016/J.Cell.2017.03.022  0.335
2017 Faust TB, Li Y, Jang GM, Johnson JR, Yang S, Weiss A, Krogan NJ, Frankel AD. PJA2 ubiquitinates the HIV-1 Tat protein with atypical chain linkages to activate viral transcription. Scientific Reports. 7: 45394. PMID 28345603 DOI: 10.1038/Srep45394  0.382
2017 Shen JP, Zhao D, Sasik R, Luebeck J, Birmingham A, Bojorquez-Gomez A, Licon K, Klepper K, Pekin D, Beckett AN, Sanchez KS, Thomas A, Kuo CC, Du D, Roguev A, ... ... Krogan N, et al. Combinatorial CRISPR-Cas9 screens for de novo mapping of genetic interactions. Nature Methods. PMID 28319113 DOI: 10.1038/Nmeth.4225  0.384
2017 Elwell CA, Czudnochowski N, von Dollen J, Johnson JR, Nakagawa R, Mirrashidi K, Krogan NJ, Engel JN, Rosenberg OS. Chlamydia interfere with an interaction between the mannose-6-phosphate receptor and sorting nexins to counteract host restriction. Elife. 6. PMID 28252385 DOI: 10.7554/Elife.22709  0.314
2017 Soonthornvacharin S, Rodriguez-Frandsen A, Zhou Y, Galvez F, Huffmaster NJ, Tripathi S, Balasubramaniam VR, Inoue A, de Castro E, Moulton H, Stein DA, Sánchez-Aparicio MT, De Jesus PD, Nguyen Q, König R, ... Krogan NJ, et al. Systems-based analysis of RIG-I-dependent signalling identifies KHSRP as an inhibitor of RIG-I receptor activation. Nature Microbiology. 2: 17022. PMID 28248290 DOI: 10.1038/Nmicrobiol.2017.22  0.369
2017 Celona B, von Dollen J, Vatsavayai SC, Kashima R, Johnson JR, Tang AA, Hata A, Miller BL, Huang EJ, Krogan NJ, Seeley WW, Black BL. Suppression of C9orf72 RNA repeat-induced neurotoxicity by the ALS-associated RNA-binding protein Zfp106. Elife. 6. PMID 28072389 DOI: 10.7554/Elife.19032  0.31
2016 Rauch BJ, Silvis MR, Hultquist JF, Waters CS, McGregor MJ, Krogan NJ, Bondy-Denomy J. Inhibition of CRISPR-Cas9 with Bacteriophage Proteins. Cell. PMID 28041849 DOI: 10.1016/J.Cell.2016.12.009  0.345
2016 Park RJ, Wang T, Koundakjian D, Hultquist JF, Lamothe-Molina P, Monel B, Schumann K, Yu H, Krupzcak KM, Garcia-Beltran W, Piechocka-Trocha A, Krogan NJ, Marson A, Sabatini DM, Lander ES, et al. A genome-wide CRISPR screen identifies a restricted set of HIV host dependency factors. Nature Genetics. PMID 27992415 DOI: 10.1038/Ng.3741  0.312
2016 Jayaraman D, Kodani A, Gonzalez DM, Mancias JD, Mochida GH, Vagnoni C, Johnson J, Krogan N, Harper JW, Reiter JF, Yu TW, Bae BI, Walsh CA. Microcephaly Proteins Wdr62 and Aspm Define a Mother Centriole Complex Regulating Centriole Biogenesis, Apical Complex, and Cell Fate. Neuron. 92: 813-828. PMID 27974163 DOI: 10.1016/J.Neuron.2016.09.056  0.406
2016 Gong D, Kim YH, Xiao Y, Du Y, Xie Y, Lee KK, Feng J, Farhat N, Zhao D, Shu S, Dai X, Chanda SK, Rana TM, Krogan NJ, Sun R, et al. A Herpesvirus Protein Selectively Inhibits Cellular mRNA Nuclear Export. Cell Host & Microbe. 20: 642-653. PMID 27832591 DOI: 10.1016/J.Chom.2016.10.004  0.371
2016 Hultquist JF, Schumann K, Woo JM, Manganaro L, McGregor MJ, Doudna J, Simon V, Krogan NJ, Marson A. A Cas9 Ribonucleoprotein Platform for Functional Genetic Studies of HIV-Host Interactions in Primary Human T Cells. Cell Reports. 17: 1438-1452. PMID 27783955 DOI: 10.1016/J.Celrep.2016.09.080  0.335
2016 De Maio FA, Risso G, Iglesias NG, Shah P, Pozzi B, Gebhard LG, Mammi P, Mancini E, Yanovsky MJ, Andino R, Krogan N, Srebrow A, Gamarnik AV. The Dengue Virus NS5 Protein Intrudes in the Cellular Spliceosome and Modulates Splicing. Plos Pathogens. 12: e1005841. PMID 27575636 DOI: 10.1371/Journal.Ppat.1005841  0.376
2016 Steunou AL, Cramet M, Rossetto D, Aristizabal MJ, Lacoste N, Drouin S, Côté V, Paquet E, Utley RT, Krogan N, Robert F, Kobor MS, Côté J. Combined action of histone reader modules regulates NuA4 local acetyltransferase function but not its recruitment on the genome. Molecular and Cellular Biology. PMID 27550811 DOI: 10.1128/Mcb.00112-16  0.611
2016 Ball KA, Johnson JR, Lewinski MK, Guatelli J, Verschueren E, Krogan NJ, Jacobson MP. Non-degradative Ubiquitination of Protein Kinases. Plos Computational Biology. 12: e1004898. PMID 27253329 DOI: 10.1371/Journal.Pcbi.1004898  0.358
2016 Inclan YF, Persat A, Greninger A, Von Dollen J, Johnson J, Krogan N, Gitai Z, Engel JN. A scaffold protein connects type IV pili with the Chp chemosensory system to mediate activation of virulence signaling in Pseudomonas aeruginosa. Molecular Microbiology. PMID 27145134 DOI: 10.1111/Mmi.13410  0.38
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  0.753
2016 Mandegar MA, Huebsch N, Frolov EB, Shin E, Truong A, Olvera MP, Chan AH, Miyaoka Y, Holmes K, Spencer CI, Judge LM, Gordon DE, Eskildsen TV, Villalta JE, Horlbeck MA, ... ... Krogan NJ, et al. CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs. Cell Stem Cell. PMID 26971820 DOI: 10.1016/J.Stem.2016.01.022  0.316
2016 Yu MK, Kramer M, Dutkowski J, Srivas R, Licon K, Kreisberg J, Ng CT, Krogan N, Sharan R, Ideker T. Translation of Genotype to Phenotype by a Hierarchy of Cell Subsystems. Cell Systems. 2: 77-88. PMID 26949740 DOI: 10.1016/J.Cels.2016.02.003  0.35
2016 Heaton NS, Moshkina N, Fenouil R, Gardner TJ, Aguirre S, Shah PS, Zhao N, Manganaro L, Hultquist JF, Noel J, Sachs DH, Hamilton J, Leon PE, Chawdury A, Tripathi S, ... ... Krogan NJ, et al. Targeting Viral Proteostasis Limits Influenza Virus, HIV, and Dengue Virus Infection. Immunity. 44: 46-58. PMID 26789921 DOI: 10.1016/J.Immuni.2015.12.017  0.321
2015 Ding L, Paszkowski-Rogacz M, Winzi M, Chakraborty D, Theis M, Singh S, Ciotta G, Poser I, Roguev A, Chu WK, Choudhary C, Mann M, Stewart AF, Krogan N, Buchholz F. Systems Analyses Reveal Shared and Diverse Attributes of Oct4 Regulation in Pluripotent Cells. Cell Systems. 1: 141-51. PMID 27135800 DOI: 10.1016/J.Cels.2015.08.002  0.381
2015 Tripathi S, Pohl MO, Zhou Y, Rodriguez-Frandsen A, Wang G, Stein DA, Moulton HM, DeJesus P, Che J, Mulder LC, Yángüez E, Andenmatten D, Pache L, Manicassamy B, Albrecht RA, ... ... Krogan N, et al. Meta- and Orthogonal Integration of Influenza "OMICs" Data Defines a Role for UBR4 in Virus Budding. Cell Host & Microbe. 18: 723-735. PMID 26651948 DOI: 10.1016/J.Chom.2015.11.002  0.346
2015 Pak V, Eifler TT, Jäger S, Krogan NJ, Fujinaga K, Peterlin BM. CDK11 in TREX/THOC Regulates HIV mRNA 3' End Processing. Cell Host & Microbe. 18: 560-70. PMID 26567509 DOI: 10.1016/J.Chom.2015.10.012  0.32
2015 Costa HA, Leitner MG, Sos ML, Mavrantoni A, Rychkova A, Johnson JR, Newton BW, Yee MC, De La Vega FM, Ford JM, Krogan NJ, Shokat KM, Oliver D, Halaszovich CR, Bustamante CD. Discovery and functional characterization of a neomorphic PTEN mutation. Proceedings of the National Academy of Sciences of the United States of America. 112: 13976-81. PMID 26504226 DOI: 10.1073/Pnas.1422504112  0.357
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  0.67
2015 Kodani A, Yu TW, Johnson JR, Jayaraman D, Johnson TL, Al-Gazali L, Sztriha L, Partlow JN, Kim H, Krup AL, Dammermann A, Krogan N, Walsh CA, Reiter JF. Centriolar satellites assemble centrosomal microcephaly proteins to recruit CDK2 and promote centriole duplication. Elife. 4. PMID 26297806 DOI: 10.7554/Elife.07519  0.403
2015 Shah PS, Wojcechowskyj JA, Eckhardt M, Krogan NJ. Comparative mapping of host-pathogen protein-protein interactions. Current Opinion in Microbiology. 27: 62-68. PMID 26275922 DOI: 10.1016/J.Mib.2015.07.008  0.396
2015 Mark KG, Meza-Gutierrez F, Johnson JR, Newton BW, Krogan NJ, Toczyski DP. Prb1 Protease Activity Is Required for Its Recognition by the F-Box Protein Saf1. Biochemistry. 54: 4423-6. PMID 26161950 DOI: 10.1021/Acs.Biochem.5B00504  0.328
2015 Mirrashidi KM, Elwell CA, Verschueren E, Johnson JR, Frando A, Von Dollen J, Rosenberg O, Gulbahce N, Jang G, Johnson T, Jäger S, Gopalakrishnan AM, Sherry J, Dunn JD, Olive A, ... ... Krogan NJ, et al. Global Mapping of the Inc-Human Interactome Reveals that Retromer Restricts Chlamydia Infection. Cell Host & Microbe. PMID 26118995 DOI: 10.1016/J.Chom.2015.06.004  0.351
2015 Krogan NJ, Lippman S, Agard DA, Ashworth A, Ideker T. The Cancer Cell Map Initiative: Defining the Hallmark Networks of Cancer. Molecular Cell. 58: 690-698. PMID 26000852 DOI: 10.1016/J.Molcel.2015.05.008  0.312
2015 Kane JR, Stanley DJ, Hultquist JF, Johnson JR, Mietrach N, Binning JM, Jónsson SR, Barelier S, Newton BW, Johnson TL, Franks-Skiba KE, Li M, Brown WL, Gunnarsson HI, Adalbjornsdóttir A, ... ... Krogan NJ, et al. Lineage-Specific Viral Hijacking of Non-canonical E3 Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity. Cell Reports. 11: 1236-50. PMID 25981045 DOI: 10.1016/J.Celrep.2015.04.038  0.344
2015 Jessulat M, Malty RH, Nguyen-Tran DH, Deineko V, Aoki H, Vlasblom J, Omidi K, Jin K, Minic Z, Hooshyar M, Burnside D, Samanfar B, Phanse S, Freywald T, Prasad B, ... ... Krogan NJ, et al. Spindle Checkpoint Factors Bub1 and Bub2 Promote DNA Double-Strand Break Repair by Nonhomologous End Joining. Molecular and Cellular Biology. 35: 2448-63. PMID 25963654 DOI: 10.1128/Mcb.00007-15  0.372
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  0.686
2015 Sidrauski C, Tsai JC, Kampmann M, Hearn BR, Vedantham P, Jaishankar P, Sokabe M, Mendez AS, Newton BW, Tang EL, Verschueren E, Johnson JR, Krogan NJ, Fraser CS, Weissman JS, et al. Pharmacological dimerization and activation of the exchange factor eIF2B antagonizes the integrated stress response. Elife. 4: e07314. PMID 25875391 DOI: 10.7554/Elife.07314  0.326
2015 Patrick KL, Ryan CJ, Xu J, Lipp JJ, Nissen KE, Roguev A, Shales M, Krogan NJ, Guthrie C. Genetic interaction mapping reveals a role for the SWI/SNF nucleosome remodeler in spliceosome activation in fission yeast. Plos Genetics. 11: e1005074. PMID 25825871 DOI: 10.1371/Journal.Pgen.1005074  0.422
2015 Sánchez A, Roguev A, Krogan NJ, Russell P. Genetic Interaction Landscape Reveals Critical Requirements for Schizosaccharomyces pombe Brc1 in DNA Damage Response Mutants. G3 (Bethesda, Md.). 5: 953-62. PMID 25795664 DOI: 10.1534/G3.115.017251  0.404
2015 Verschueren E, Von Dollen J, Cimermancic P, Gulbahce N, Sali A, Krogan NJ. Scoring Large-Scale Affinity Purification Mass Spectrometry Datasets with MiST. Current Protocols in Bioinformatics / Editoral Board, Andreas D. Baxevanis ... [Et Al.]. 49: 8.19.1-8.19.16. PMID 25754993 DOI: 10.1002/0471250953.Bi0819S49  0.308
2015 Ramage HR, Kumar GR, Verschueren E, Johnson JR, Von Dollen J, Johnson T, Newton B, Shah P, Horner J, Krogan NJ, Ott M. A combined proteomics/genomics approach links hepatitis C virus infection with nonsense-mediated mRNA decay. Molecular Cell. 57: 329-40. PMID 25616068 DOI: 10.1016/J.Molcel.2014.12.028  0.328
2015 Davis ZH, Verschueren E, Jang GM, Kleffman K, Johnson JR, Park J, Von Dollen J, Maher MC, Johnson T, Newton W, Jäger S, Shales M, Horner J, Hernandez RD, Krogan NJ, et al. Global mapping of herpesvirus-host protein complexes reveals a transcription strategy for late genes. Molecular Cell. 57: 349-60. PMID 25544563 DOI: 10.1016/J.Molcel.2014.11.026  0.444
2015 Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji AF, ... ... Krogan NJ, et al. Linking tumor mutations to drug responses via a quantitative chemical-genetic interaction map. Cancer Discovery. 5: 154-67. PMID 25501949 DOI: 10.1158/2159-8290.Cd-14-0552  0.357
2015 Eifler TT, Shao W, Bartholomeeusen K, Fujinaga K, Jäger S, Johnson JR, Luo Z, Krogan NJ, Peterlin BM. Cyclin-dependent kinase 12 increases 3' end processing of growth factor-induced c-FOS transcripts. Molecular and Cellular Biology. 35: 468-78. PMID 25384976 DOI: 10.1128/Mcb.01157-14  0.347
2015 Downey M, Johnson JR, Davey NE, Newton BW, Johnson TL, Galaang S, Seller CA, Krogan N, Toczyski DP. Acetylome profiling reveals overlap in the regulation of diverse processes by sirtuins, gcn5, and esa1. Molecular & Cellular Proteomics : McP. 14: 162-76. PMID 25381059 DOI: 10.1074/Mcp.M114.043141  0.385
2015 Kodani A, Yu TW, Johnson JR, Jayaraman D, Johnson TL, Al-Gazali L, Sztriha L, Partlow JN, Kim H, Krup AL, Dammermann A, Krogan NJ, Walsh CA, Reiter JF. Author response: Centriolar satellites assemble centrosomal microcephaly proteins to recruit CDK2 and promote centriole duplication Elife. DOI: 10.7554/Elife.07519.038  0.336
2015 Zhou AY, Martins MM, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji A, ... ... Krogan NJ, et al. Abstract B48: Identification of novel drug interactions with MYC via a quantitative chemical-genetic interaction map Molecular Cancer Research. 13. DOI: 10.1158/1557-3125.Myc15-B48  0.361
2015 Zhou AY, Martins MM, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji A, ... ... Krogan NJ, et al. Abstract B44: A systems approach combining genomics, advocacy, and emerging novel therapeutics to address triple-negative breast cancer (TNBC) outcomes disparities Cancer Epidemiology, Biomarkers & Prevention. 24. DOI: 10.1158/1538-7755.Disp14-B44  0.316
2015 Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji A, ... ... Krogan NJ, et al. Abstract PR15: Functional analysis of diverse oncogenic driver mutations using an isogenic cell line library identifies novel drug responses and alterations in metabolism Cancer Research. 75. DOI: 10.1158/1538-7445.Transcagen-Pr15  0.342
2015 Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji A, ... ... Krogan NJ, et al. Abstract PR07: Functional analysis of diverse oncogenic driver mutations using an isogenic cell line library identifies novel drug responses and alterations in metabolism Cancer Research. 75. DOI: 10.1158/1538-7445.Compsysbio-Pr07  0.34
2014 Lin C, Yao E, Wang K, Nozawa Y, Shimizu H, Johnson JR, Chen JN, Krogan NJ, Chuang PT. Regulation of Sufu activity by p66β and Mycbp provides new insight into vertebrate Hedgehog signaling. Genes & Development. 28: 2547-63. PMID 25403183 DOI: 10.1101/Gad.249425.114  0.375
2014 Tosti E, Katakowski JA, Schaetzlein S, Kim HS, Ryan CJ, Shales M, Roguev A, Krogan NJ, Palliser D, Keogh MC, Edelmann W. Evolutionarily conserved genetic interactions with budding and fission yeast MutS identify orthologous relationships in mismatch repair-deficient cancer cells. Genome Medicine. 6: 68. PMID 25302077 DOI: 10.1186/S13073-014-0068-4  0.721
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  0.75
2014 Anver S, Roguev A, Zofall M, Krogan NJ, Grewal SI, Harmer SL. Yeast X-chromosome-associated protein 5 (Xap5) functions with H2A.Z to suppress aberrant transcripts. Embo Reports. 15: 894-902. PMID 24957674 DOI: 10.15252/Embr.201438902  0.43
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  0.753
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  0.711
2014 Leung GP, Aristizabal MJ, Krogan NJ, Kobor MS. Conditional genetic interactions of RTT107, SLX4, and HRQ1 reveal dynamic networks upon DNA damage in S. cerevisiae. G3 (Bethesda, Md.). 4: 1059-69. PMID 24700328 DOI: 10.1534/G3.114.011205  0.596
2014 Kim HS, Mukhopadhyay R, Rothbart SB, Silva AC, Vanoosthuyse V, Radovani E, Kislinger T, Roguev A, Ryan CJ, Xu J, Jahari H, Hardwick KG, Greenblatt JF, Krogan NJ, Fillingham JS, et al. Identification of a BET family bromodomain/casein kinase II/TAF-containing complex as a regulator of mitotic condensin function. Cell Reports. 6: 892-905. PMID 24565511 DOI: 10.1016/J.Celrep.2014.01.029  0.8
2014 Kriegenburg F, Jakopec V, Poulsen EG, Nielsen SV, Roguev A, Krogan N, Gordon C, Fleig U, Hartmann-Petersen R. A Chaperone-Assisted Degradation Pathway Targets Kinetochore Proteins to Ensure Genome Stability Plos Genetics. 10. PMID 24497846 DOI: 10.1371/Journal.Pgen.1004140  0.401
2014 Martín GM, King DA, Green EM, Garcia-Nieto PE, Alexander R, Collins SR, Krogan NJ, Gozani OP, Morrison AJ. Set5 and Set1 cooperate to repress gene expression at telomeres and retrotransposons. Epigenetics : Official Journal of the Dna Methylation Society. 9: 513-22. PMID 24442241 DOI: 10.4161/Epi.27645  0.399
2014 Kabeche R, Roguev A, Krogan NJ, Moseley JB. A Pil1-Sle1-Syj1-Tax4 functional pathway links eisosomes with PI(4,5)P2 regulation. Journal of Cell Science. 127: 1318-26. PMID 24434583 DOI: 10.1242/Jcs.143545  0.346
2014 Lu H, Li Z, Xue Y, Schulze-Gahmen U, Johnson JR, Krogan NJ, Alber T, Zhou Q. AFF1 is a ubiquitous P-TEFb partner to enable Tat extraction of P-TEFb from 7SK snRNP and formation of SECs for HIV transactivation. Proceedings of the National Academy of Sciences of the United States of America. 111: E15-24. PMID 24367103 DOI: 10.1073/Pnas.1318503111  0.31
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  0.678
2013 Kliegman JI, Fiedler D, Ryan CJ, Xu YF, Su XY, Thomas D, Caccese MC, Cheng A, Shales M, Rabinowitz JD, Krogan NJ, Shokat KM. Chemical genetics of rapamycin-insensitive TORC2 in S. cerevisiae. Cell Reports. 5: 1725-36. PMID 24360963 DOI: 10.1016/J.Celrep.2013.11.040  0.365
2013 Ryan CJ, Cimerman?i? P, Szpiech ZA, Sali A, Hernandez RD, Krogan NJ. High-resolution network biology: connecting sequence with function. Nature Reviews. Genetics. 14: 865-79. PMID 24197012 DOI: 10.1038/Nrg3574  0.414
2013 Millán-Zambrano G, Rodríguez-Gil A, Peñate X, de Miguel-Jiménez L, Morillo-Huesca M, Krogan N, Chávez S. The Prefoldin Complex Regulates Chromatin Dynamics during Transcription Elongation Plos Genetics. 9. PMID 24068951 DOI: 10.1371/Journal.Pgen.1003776  0.419
2013 Aristizabal MJ, Negri GL, Benschop JJ, Holstege FC, Krogan NJ, Kobor MS. High-throughput genetic and gene expression analysis of the RNAPII-CTD reveals unexpected connections to SRB10/CDK8. Plos Genetics. 9: e1003758. PMID 24009531 DOI: 10.1371/Journal.Pgen.1003758  0.591
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, ... ... Krogan NJ, 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  0.749
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  0.715
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  0.662
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  0.765
2013 Bushman FD, Barton S, Bailey A, Greig C, Malani N, Bandyopadhyay S, Young J, Chanda S, Krogan N. Bringing it all together: big data and HIV research. Aids (London, England). 27: 835-8. PMID 23719353 DOI: 10.1097/Qad.0B013E32835Cb785  0.313
2013 Ryan CJ, Krogan NJ, Cunningham P, Cagney G. All or nothing: protein complexes flip essentiality between distantly related eukaryotes. Genome Biology and Evolution. 5: 1049-59. PMID 23661563 DOI: 10.1093/Gbe/Evt074  0.387
2013 Roguev A, Talbot D, Negri GL, Shales M, Cagney G, Bandyopadhyay S, Panning B, Krogan NJ. Quantitative genetic-interaction mapping in mammalian cells. Nature Methods. 10: 432-7. PMID 23407553 DOI: 10.1038/Nmeth.2398  0.425
2013 Kim DY, Kwon E, Hartley PD, Crosby DC, Mann S, Krogan NJ, Gross JD. CBFβ stabilizes HIV Vif to counteract APOBEC3 at the expense of RUNX1 target gene expression. Molecular Cell. 49: 632-44. PMID 23333304 DOI: 10.1016/J.Molcel.2012.12.012  0.387
2013 Albin JS, Anderson JS, Johnson JR, Harjes E, Matsuo H, Krogan NJ, Harris RS. Dispersed sites of HIV Vif-dependent polyubiquitination in the DNA deaminase APOBEC3F. Journal of Molecular Biology. 425: 1172-82. PMID 23318957 DOI: 10.1016/J.Jmb.2013.01.010  0.326
2013 Guénolé A, Srivas R, Vreeken K, Wang ZZ, Wang S, Krogan NJ, Ideker T, van Attikum H. Dissection of DNA damage responses using multiconditional genetic interaction maps. Molecular Cell. 49: 346-58. PMID 23273983 DOI: 10.1016/J.Molcel.2012.11.023  0.37
2013 Chou S, Upton H, Bao K, Schulze-Gahmen U, Samelson AJ, He N, Nowak A, Lu H, Krogan NJ, Zhou Q, Alber T. HIV-1 Tat recruits transcription elongation factors dispersed along a flexible AFF4 scaffold. Proceedings of the National Academy of Sciences of the United States of America. 110: E123-31. PMID 23251033 DOI: 10.1073/Pnas.1216971110  0.367
2013 Dutkowski J, Kramer M, Surma MA, Balakrishnan R, Cherry JM, Krogan NJ, Ideker T. A gene ontology inferred from molecular networks. Nature Biotechnology. 31: 38-45. PMID 23242164 DOI: 10.1038/Nbt.2463  0.33
2013 Tosti E, Katakowski JA, Schaetzlein S, Kim H, Ryan CJ, Shales M, Roguev A, Krogan NJ, Palliser D, Keogh M, Edelmann W. Abstract A13: Identification of evolutionarily conserved genetic interactions in DNA mismatch repair Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Pms-A13  0.695
2012 Stanley DJ, Bartholomeeusen K, Crosby DC, Kim DY, Kwon E, Yen L, Cartozo NC, Li M, Jäger S, Mason-Herr J, Hayashi F, Yokoyama S, Krogan NJ, Harris RS, Peterlin BM, et al. Inhibition of a NEDD8 Cascade Restores Restriction of HIV by APOBEC3G. Plos Pathogens. 8: e1003085. PMID 23300442 DOI: 10.1371/Journal.Ppat.1003085  0.304
2012 Moehle EA, Ryan CJ, Krogan NJ, Kress TL, Guthrie C. The yeast SR-like protein Npl3 links chromatin modification to mRNA processing. Plos Genetics. 8: e1003101. PMID 23209445 DOI: 10.1371/Journal.Pgen.1003101  0.464
2012 Armakola M, Higgins MJ, Figley MD, Barmada SJ, Scarborough EA, Diaz Z, Fang X, Shorter J, Krogan NJ, Finkbeiner S, Farese RV, Gitler AD. Inhibition of RNA lariat debranching enzyme suppresses TDP-43 toxicity in ALS disease models. Nature Genetics. 44: 1302-9. PMID 23104007 DOI: 10.1038/Ng.2434  0.302
2012 Sánchez A, Sharma S, Rozenzhak S, Roguev A, Krogan NJ, Chabes A, Russell P. Replication fork collapse and genome instability in a deoxycytidylate deaminase mutant. Molecular and Cellular Biology. 32: 4445-54. PMID 22927644 DOI: 10.1128/Mcb.01062-12  0.356
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  0.687
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  0.691
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, ... ... Krogan NJ, 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  0.798
2012 Hunkapiller J, Shen Y, Diaz A, Cagney G, McCleary D, Ramalho-Santos M, Krogan N, Ren B, Song JS, Reiter JF. Polycomb-like 3 promotes polycomb repressive complex 2 binding to CpG islands and embryonic stem cell self-renewal. Plos Genetics. 8: e1002576. PMID 22438827 DOI: 10.1371/Journal.Pgen.1002576  0.344
2012 Ideker T, Krogan NJ. Differential network biology. Molecular Systems Biology. 8: 565. PMID 22252388 DOI: 10.1038/Msb.2011.99  0.353
2012 Jäger S, Kim DY, Hultquist JF, Shindo K, LaRue RS, Kwon E, Li M, Anderson BD, Yen L, Stanley D, Mahon C, Kane J, Franks-Skiba K, Cimermancic P, Burlingame A, ... ... Krogan NJ, et al. Vif hijacks CBF-β to degrade APOBEC3G and promote HIV-1 infection. Nature. 481: 371-5. PMID 22190037 DOI: 10.1038/Nature10693  0.38
2012 Jäger S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Li K, Hernandez H, Jang GM, Roth SL, Akiva E, Marlett J, ... ... Krogan NJ, et al. Global landscape of HIV-human protein complexes. Nature. 481: 365-70. PMID 22190034 DOI: 10.1038/Nature10719  0.355
2012 Li M, Shandilya SM, Carpenter MA, Rathore A, Brown WL, Perkins AL, Harki DA, Solberg J, Hook DJ, Pandey KK, Parniak MA, Johnson JR, Krogan NJ, Somasundaran M, Ali A, et al. First-in-class small molecule inhibitors of the single-strand DNA cytosine deaminase APOBEC3G. Acs Chemical Biology. 7: 506-17. PMID 22181350 DOI: 10.1021/Cb200440Y  0.307
2012 Naji S, Ambrus G, Cimerman?i? P, Reyes JR, Johnson JR, Filbrandt R, Huber MD, Vesely P, Krogan NJ, Yates JR, Saphire AC, Gerace L. Host cell interactome of HIV-1 Rev includes RNA helicases involved in multiple facets of virus production. Molecular & Cellular Proteomics : McP. 11: M111.015313. PMID 22174317 DOI: 10.1074/Mcp.M111.015313  0.392
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  0.746
2012 Moehle EA, Ryan CJ, Krogan NJ, Kress TL, Guthrie C. Extensive negative genetic interactions with npl3 Δ connect NPL3 to chromatin biology. Plos Genetics. DOI: 10.1371/Journal.Pgen.1003101.G001  0.355
2011 Ryan C, Cagney G, Krogan N, Cunningham P, Greene D. Imputing and predicting quantitative genetic interactions in epistatic MAPs. Methods in Molecular Biology (Clifton, N.J.). 781: 353-61. PMID 21877290 DOI: 10.1007/978-1-61779-276-2_17  0.375
2011 Casey F, Krogan N, Shields DC, Cagney G. Distinct configurations of protein complexes and biochemical pathways revealed by epistatic interaction network motifs. Bmc Systems Biology. 5: 133. PMID 21859460 DOI: 10.1186/1752-0509-5-133  0.408
2011 Wang AY, Aristizabal MJ, Ryan C, Krogan NJ, Kobor MS. Key functional regions in the histone variant H2A.Z C-terminal docking domain. Molecular and Cellular Biology. 31: 3871-84. PMID 21791612 DOI: 10.1128/Mcb.05182-11  0.57
2011 Fahey ME, Bennett MJ, Mahon C, Jäger S, Pache L, Kumar D, Shapiro A, Rao K, Chanda SK, Craik CS, Frankel AD, Krogan NJ. GPS-Prot: a web-based visualization platform for integrating host-pathogen interaction data. Bmc Bioinformatics. 12: 298. PMID 21777475 DOI: 10.1186/1471-2105-12-298  0.34
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  0.678
2011 Ryan C, Greene D, Guénolé A, van Attikum H, Krogan NJ, Cunningham P, Cagney G. Improved functional overview of protein complexes using inferred epistatic relationships. Bmc Systems Biology. 5: 80. PMID 21605386 DOI: 10.1186/1752-0509-5-80  0.415
2011 Stewart EV, Nwosu CC, Tong Z, Roguev A, Cummins TD, Kim DU, Hayles J, Park HO, Hoe KL, Powell DW, Krogan NJ, Espenshade PJ. Yeast SREBP cleavage activation requires the Golgi Dsc E3 ligase complex. Molecular Cell. 42: 160-71. PMID 21504829 DOI: 10.1016/J.Molcel.2011.02.035  0.386
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  0.651
2011 Jäger S, Gulbahce N, Cimermancic P, Kane J, He N, Chou S, D'Orso I, Fernandes J, Jang G, Frankel AD, Alber T, Zhou Q, Krogan NJ. Purification and characterization of HIV-human protein complexes. Methods (San Diego, Calif.). 53: 13-9. PMID 20708689 DOI: 10.1016/J.Ymeth.2010.08.007  0.397
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  0.637
2010 van Wageningen S, Kemmeren P, Lijnzaad P, Margaritis T, Benschop JJ, de Castro IJ, van Leenen D, Groot Koerkamp MJ, Ko CW, Miles AJ, Brabers N, Brok MO, Lenstra TL, Fiedler D, Fokkens L, ... ... Krogan NJ, et al. Functional overlap and regulatory links shape genetic interactions between signaling pathways. Cell. 143: 991-1004. PMID 21145464 DOI: 10.1016/J.Cell.2010.11.021  0.406
2010 Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guénolé A, van Attikum H, Shokat KM, ... ... Krogan NJ, et al. Rewiring of genetic networks in response to DNA damage. Science (New York, N.Y.). 330: 1385-9. PMID 21127252 DOI: 10.1126/Science.1195618  0.711
2010 Zheng J, Benschop JJ, Shales M, Kemmeren P, Greenblatt J, Cagney G, Holstege F, Li H, Krogan NJ. Epistatic relationships reveal the functional organization of yeast transcription factors. Molecular Systems Biology. 6: 420. PMID 20959818 DOI: 10.1038/Msb.2010.77  0.602
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  0.798
2010 Collins SR, Roguev A, Krogan NJ. Quantitative genetic interaction mapping using the E-MAP approach. Methods in Enzymology. 470: 205-31. PMID 20946812 DOI: 10.1016/S0076-6879(10)70009-4  0.366
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  0.681
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  0.716
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  0.64
2010 He N, Liu M, Hsu J, Xue Y, Chou S, Burlingame A, Krogan NJ, Alber T, Zhou Q. HIV-1 Tat and host AFF4 recruit two transcription elongation factors into a bifunctional complex for coordinated activation of HIV-1 transcription. Molecular Cell. 38: 428-38. PMID 20471948 DOI: 10.1016/J.Molcel.2010.04.013  0.305
2010 Walker E, Chang WY, Hunkapiller J, Cagney G, Garcha K, Torchia J, Krogan NJ, Reiter JF, Stanford WL. Polycomb-like 2 associates with PRC2 and regulates transcriptional networks during mouse embryonic stem cell self-renewal and differentiation. Cell Stem Cell. 6: 153-66. PMID 20144788 DOI: 10.1016/J.Stem.2009.12.014  0.359
2009 Hannum G, Srivas R, Guénolé A, van Attikum H, Krogan NJ, Karp RM, Ideker T. Genome-wide association data reveal a global map of genetic interactions among protein complexes. Plos Genetics. 5: e1000782. PMID 20041197 DOI: 10.1371/Journal.Pgen.1000782  0.42
2009 Ulitsky I, Krogan NJ, Shamir R. Towards accurate imputation of quantitative genetic interactions. Genome Biology. 10: R140. PMID 20003301 DOI: 10.1186/Gb-2009-10-12-R140  0.357
2009 Kim HS, Vanoosthuyse V, Fillingham J, Roguev A, Watt S, Kislinger T, Treyer A, Carpenter LR, Bennett CS, Emili A, Greenblatt JF, Hardwick KG, Krogan NJ, Bähler J, Keogh MC. An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe. Nature Structural & Molecular Biology. 16: 1286-93. PMID 19915592 DOI: 10.1038/Nsmb.1688  0.782
2009 Khanna M, Van Bakel H, Tang X, Calarco JA, Babak T, Guo G, Emili A, Greenblatt JF, Hughes TR, Krogan NJ, Blencowe BJ. A systematic characterization of Cwc21, the yeast ortholog of the human spliceosomal protein SRm300. Rna (New York, N.Y.). 15: 2174-85. PMID 19789211 DOI: 10.1261/Rna.1790509  0.635
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  0.687
2009 Gong Y, Kakihara Y, Krogan N, Greenblatt J, Emili A, Zhang Z, Houry WA. An atlas of chaperone-protein interactions in Saccharomyces cerevisiae: implications to protein folding pathways in the cell. Molecular Systems Biology. 5: 275. PMID 19536198 DOI: 10.1038/Msb.2009.26  0.589
2009 Babu M, Krogan NJ, Awrey DE, Emili A, Greenblatt JF. Systematic characterization of the protein interaction network and protein complexes in Saccharomyces cerevisiae using tandem affinity purification and mass spectrometry. Methods in Molecular Biology (Clifton, N.J.). 548: 187-207. PMID 19521826 DOI: 10.1007/978-1-59745-540-4_11  0.592
2009 Bushman FD, Malani N, Fernandes J, D'Orso I, Cagney G, Diamond TL, Zhou H, Hazuda DJ, Espeseth AS, König R, Bandyopadhyay S, Ideker T, Goff SP, Krogan NJ, Frankel AD, et al. Host cell factors in HIV replication: meta-analysis of genome-wide studies. Plos Pathogens. 5: e1000437. PMID 19478882 DOI: 10.1371/Journal.Ppat.1000437  0.332
2009 Selth LA, Lorch Y, Ocampo-Hafalla MT, Mitter R, Shales M, Krogan NJ, Kornberg RD, Svejstrup JQ. An rtt109-independent role for vps75 in transcription-associated nucleosome dynamics. Molecular and Cellular Biology. 29: 4220-34. PMID 19470761 DOI: 10.1128/Mcb.01882-08  0.415
2009 Wiseman RL, Chin KT, Haynes CM, Stanhill A, Xu CF, Roguev A, Krogan NJ, Neubert TA, Ron D. Thioredoxin-related Protein 32 is an arsenite-regulated Thiol Reductase of the proteasome 19 S particle. The Journal of Biological Chemistry. 284: 15233-45. PMID 19349280 DOI: 10.1074/Jbc.M109.002121  0.376
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, ... ... Krogan NJ, et al. Functional organization of the S. cerevisiae phosphorylation network. Cell. 136: 952-63. PMID 19269370 DOI: 10.1016/J.Cell.2008.12.039  0.812
2009 Lee SI, Dudley AM, Drubin D, Silver PA, Krogan NJ, Pe'er D, Koller D. Learning a prior on regulatory potential from eQTL data. Plos Genetics. 5: e1000358. PMID 19180192 DOI: 10.1371/Journal.Pgen.1000358  0.366
2009 Wang H, Kakaradov B, Collins SR, Karotki L, Fiedler D, Shales M, Shokat KM, Walther TC, Krogan NJ, Koller D. A complex-based reconstruction of the Saccharomyces cerevisiae interactome. Molecular & Cellular Proteomics : McP. 8: 1361-81. PMID 19176519 DOI: 10.1074/Mcp.M800490-Mcp200  0.353
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  0.605
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  0.739
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  0.746
2008 Kress TL, Krogan NJ, Guthrie C. A single SR-like protein, Npl3, promotes pre-mRNA splicing in budding yeast. Molecular Cell. 32: 727-34. PMID 19061647 DOI: 10.1016/J.Molcel.2008.11.013  0.421
2008 Shevchenko A, Roguev A, Schaft D, Buchanan L, Habermann B, Sakalar C, Thomas H, Krogan NJ, Shevchenko A, Stewart AF. Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment. Genome Biology. 9: R167. PMID 19040720 DOI: 10.1186/Gb-2008-9-11-R167  0.391
2008 Nagai S, Dubrana K, Tsai-Pflugfelder M, Davidson MB, Roberts TM, Brown GW, Varela E, Hediger F, Gasser SM, Krogan NJ. Functional targeting of DNA damage to a nuclear pore-associated SUMO-dependent ubiquitin ligase. Science (New York, N.Y.). 322: 597-602. PMID 18948542 DOI: 10.1126/Science.1162790  0.367
2008 Roguev A, Bandyopadhyay S, Zofall M, Zhang K, Fischer T, Collins SR, Qu H, Shales M, Park HO, Hayles J, Hoe KL, Kim DU, Ideker T, Grewal SI, Weissman JS, ... Krogan NJ, et al. Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science (New York, N.Y.). 322: 405-10. PMID 18818364 DOI: 10.1126/Science.1162609  0.417
2008 Casey FP, Cagney G, Krogan NJ, Shields DC. Optimal stepwise experimental design for pairwise functional interaction studies. Bioinformatics (Oxford, England). 24: 2733-9. PMID 18805797 DOI: 10.1093/Bioinformatics/Btn472  0.318
2008 Breslow DK, Cameron DM, Collins SR, Schuldiner M, Stewart-Ornstein J, Newman HW, Braun S, Madhani HD, Krogan NJ, Weissman JS. A comprehensive strategy enabling high-resolution functional analysis of the yeast genome. Nature Methods. 5: 711-8. PMID 18622397 DOI: 10.1038/Nmeth.1234  0.376
2008 Fillingham J, Recht J, Silva AC, Suter B, Emili A, Stagljar I, Krogan NJ, Allis CD, Keogh MC, Greenblatt JF. Chaperone control of the activity and specificity of the histone H3 acetyltransferase Rtt109. Molecular and Cellular Biology. 28: 4342-53. PMID 18458063 DOI: 10.1128/Mcb.00182-08  0.774
2008 Roguev A, Krogan NJ. BAC to the future: functional genomics in mammals. Nature Methods. 5: 383-4. PMID 18446155 DOI: 10.1038/Nmeth0508-383  0.343
2008 Bandyopadhyay S, Kelley R, Krogan NJ, Ideker T. Functional maps of protein complexes from quantitative genetic interaction data. Plos Computational Biology. 4: e1000065. PMID 18421374 DOI: 10.1371/Journal.Pcbi.1000065  0.441
2007 Roguev A, Wiren M, Weissman JS, Krogan NJ. High-throughput genetic interaction mapping in the fission yeast Schizosaccharomyces pombe. Nature Methods. 4: 861-6. PMID 17893680 DOI: 10.1038/Nmeth1098  0.385
2007 Suter B, Pogoutse O, Guo X, Krogan N, Lewis P, Greenblatt JF, Rine J, Emili A. Association with the origin recognition complex suggests a novel role for histone acetyltransferase Hat1p/Hat2p. Bmc Biology. 5: 38. PMID 17880717 DOI: 10.1186/1741-7007-5-38  0.587
2007 Morrison AJ, Kim JA, Person MD, Highland J, Xiao J, Wehr TS, Hensley S, Bao Y, Shen J, Collins SR, Weissman JS, Delrow J, Krogan NJ, Haber JE, Shen X. Mec1/Tel1 phosphorylation of the INO80 chromatin remodeling complex influences DNA damage checkpoint responses. Cell. 130: 499-511. PMID 17693258 DOI: 10.1016/J.Cell.2007.06.010  0.353
2007 Zaharik ML, Lamb SS, Baker KE, Krogan NJ, Neuhard J, Kelln RA. Mutations in yhiT enable utilization of exogenous pyrimidine intermediates in Salmonella enterica serovar Typhimurium. Microbiology (Reading, England). 153: 2472-82. PMID 17660412 DOI: 10.1099/Mic.0.2007/007583-0  0.714
2007 Wyce A, Xiao T, Whelan KA, Kosman C, Walter W, Eick D, Hughes TR, Krogan NJ, Strahl BD, Berger SL. H2B ubiquitylation acts as a barrier to Ctk1 nucleosomal recruitment prior to removal by Ubp8 within a SAGA-related complex. Molecular Cell. 27: 275-88. PMID 17643376 DOI: 10.1016/J.Molcel.2007.01.035  0.386
2007 Gupta R, Kus B, Fladd C, Wasmuth J, Tonikian R, Sidhu S, Krogan NJ, Parkinson J, Rotin D. Ubiquitination screen using protein microarrays for comprehensive identification of Rsp5 substrates in yeast. Molecular Systems Biology. 3: 116. PMID 17551511 DOI: 10.1038/Msb4100159  0.355
2007 Roguev A, Krogan NJ. SIN-fully silent: HDAC complexes in fission yeast. Nature Structural & Molecular Biology. 14: 358-9. PMID 17473877 DOI: 10.1038/Nsmb0507-358  0.359
2007 Ihmels J, Collins SR, Schuldiner M, Krogan NJ, Weissman JS. Backup without redundancy: genetic interactions reveal the cost of duplicate gene loss. Molecular Systems Biology. 3: 86. PMID 17389874 DOI: 10.1038/Msb4100127  0.375
2007 Laribee RN, Shibata Y, Mersman DP, Collins SR, Kemmeren P, Roguev A, Weissman JS, Briggs SD, Krogan NJ, Strahl BD. CCR4/NOT complex associates with the proteasome and regulates histone methylation. Proceedings of the National Academy of Sciences of the United States of America. 104: 5836-41. PMID 17389396 DOI: 10.1073/Pnas.0607996104  0.422
2007 Collins SR, Miller KM, Maas NL, Roguev A, Fillingham J, Chu CS, Schuldiner M, Gebbia M, Recht J, Shales M, Ding H, Xu H, Han J, Ingvarsdottir K, Cheng B, ... ... Krogan NJ, et al. Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map. Nature. 446: 806-10. PMID 17314980 DOI: 10.1038/Nature05649  0.808
2007 Collins SR, Kemmeren P, Zhao XC, Greenblatt JF, Spencer F, Holstege FC, Weissman JS, Krogan NJ. Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae. Molecular & Cellular Proteomics : McP. 6: 439-50. PMID 17200106 DOI: 10.1074/Mcp.M600381-Mcp200  0.594
2007 Xiao T, Shibata Y, Rao B, Laribee RN, O'Rourke R, Buck MJ, Greenblatt JF, Krogan NJ, Lieb JD, Strahl BD. The RNA polymerase II kinase Ctk1 regulates positioning of a 5' histone methylation boundary along genes. Molecular and Cellular Biology. 27: 721-31. PMID 17088384 DOI: 10.1128/Mcb.01628-06  0.569
2007 Butland G, Krogan NJ, Xu J, Yang WH, Aoki H, Li JS, Krogan N, Menendez J, Cagney G, Kiani GC, Jessulat MG, Datta N, Ivanov I, Abouhaidar MG, Emili A, et al. Investigating the in vivo activity of the DeaD protein using protein-protein interactions and the translational activity of structured chloramphenicol acetyltransferase mRNAs. Journal of Cellular Biochemistry. 100: 642-52. PMID 16983699 DOI: 10.1002/Jcb.21016  0.601
2006 Schuldiner M, Collins SR, Weissman JS, Krogan NJ. Quantitative genetic analysis in Saccharomyces cerevisiae using epistatic miniarray profiles (E-MAPs) and its application to chromatin functions. Methods (San Diego, Calif.). 40: 344-52. PMID 17101447 DOI: 10.1016/J.Ymeth.2006.07.034  0.426
2006 Cagney G, Alvaro D, Reid RJ, Thorpe PH, Rothstein R, Krogan NJ. Functional genomics of the yeast DNA-damage response. Genome Biology. 7: 233. PMID 16959047 DOI: 10.1186/Gb-2006-7-9-233  0.31
2006 Fillingham J, Keogh MC, Krogan NJ. GammaH2AX and its role in DNA double-strand break repair. Biochemistry and Cell Biology = Biochimie Et Biologie Cellulaire. 84: 568-77. PMID 16936829 DOI: 10.1139/o06-072  0.791
2006 Pitre S, Dehne F, Chan A, Cheetham J, Duong A, Emili A, Gebbia M, Greenblatt J, Jessulat M, Krogan N, Luo X, Golshani A. PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs. Bmc Bioinformatics. 7: 365. PMID 16872538 DOI: 10.1186/1471-2105-7-365  0.599
2006 Collins SR, Schuldiner M, Krogan NJ, Weissman JS. A strategy for extracting and analyzing large-scale quantitative epistatic interaction data. Genome Biology. 7: R63. PMID 16859555 DOI: 10.1186/Gb-2006-7-7-R63  0.345
2006 Maciag K, Altschuler SJ, Slack MD, Krogan NJ, Emili A, Greenblatt JF, Maniatis T, Wu LF. Systems-level analyses identify extensive coupling among gene expression machines. Molecular Systems Biology. 2: 2006.0003. PMID 16738550 DOI: 10.1038/Msb4100045  0.582
2006 Downey M, Houlsworth R, Maringele L, Rollie A, Brehme M, Galicia S, Guillard S, Partington M, Zubko MK, Krogan NJ, Emili A, Greenblatt JF, Harrington L, Lydall D, Durocher D. A genome-wide screen identifies the evolutionarily conserved KEOPS complex as a telomere regulator. Cell. 124: 1155-68. PMID 16564010 DOI: 10.1016/J.Cell.2005.12.044  0.611
2006 Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrín-Alvarez JM, Shales M, Zhang X, Davey M, et al. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature. 440: 637-43. PMID 16554755 DOI: 10.1038/Nature04670  0.589
2006 Keogh MC, Mennella TA, Sawa C, Berthelet S, Krogan NJ, Wolek A, Podolny V, Carpenter LR, Greenblatt JF, Baetz K, Buratowski S. The Saccharomyces cerevisiae histone H2A variant Htz1 is acetylated by NuA4. Genes & Development. 20: 660-5. PMID 16543219 DOI: 10.1101/Gad.1388106  0.752
2006 Keogh MC, Kim JA, Downey M, Fillingham J, Chowdhury D, Harrison JC, Onishi M, Datta N, Galicia S, Emili A, Lieberman J, Shen X, Buratowski S, Haber JE, Durocher D, ... ... Krogan NJ, et al. A phosphatase complex that dephosphorylates gammaH2AX regulates DNA damage checkpoint recovery. Nature. 439: 497-501. PMID 16299494 DOI: 10.1038/Nature04384  0.797
2006 Keogh M, Kim J, Downey M, Fillingham J, Chowdhury D, Harrison JC, Onishi M, Datta N, Galicia S, Emili A, Lieberman J, Shen X, Buratowski S, Haber JE, Durocher D, ... ... Krogan NJ, et al. Erratum: Corrigendum: A phosphatase complex that dephosphorylates γH2AX regulates DNA damage checkpoint recovery Nature. 441: 120-120. DOI: 10.1038/Nature04772  0.773
2005 Keogh MC, Kurdistani SK, Morris SA, Ahn SH, Podolny V, Collins SR, Schuldiner M, Chin K, Punna T, Thompson NJ, Boone C, Emili A, Weissman JS, Hughes TR, Strahl BD, ... ... Krogan NJ, et al. Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell. 123: 593-605. PMID 16286008 DOI: 10.1016/J.Cell.2005.10.025  0.755
2005 Schuldiner M, Collins SR, Thompson NJ, Denic V, Bhamidipati A, Punna T, Ihmels J, Andrews B, Boone C, Greenblatt JF, Weissman JS, Krogan NJ. Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile. Cell. 123: 507-19. PMID 16269340 DOI: 10.1016/J.Cell.2005.08.031  0.585
2005 Prather D, Krogan NJ, Emili A, Greenblatt JF, Winston F. Identification and characterization of Elf1, a conserved transcription elongation factor in Saccharomyces cerevisiae. Molecular and Cellular Biology. 25: 10122-35. PMID 16260625 DOI: 10.1128/Mcb.25.22.10122-10135.2005  0.588
2005 Laribee RN, Krogan NJ, Xiao T, Shibata Y, Hughes TR, Greenblatt JF, Strahl BD. BUR kinase selectively regulates H3 K4 trimethylation and H2B ubiquitylation through recruitment of the PAF elongation complex. Current Biology : Cb. 15: 1487-93. PMID 16040246 DOI: 10.1016/J.Cub.2005.07.028  0.586
2005 Hoang T, Peng WT, Vanrobays E, Krogan N, Hiley S, Beyer AL, Osheim YN, Greenblatt J, Hughes TR, Lafontaine DL. Esf2p, a U3-associated factor required for small-subunit processome assembly and compaction. Molecular and Cellular Biology. 25: 5523-34. PMID 15964808 DOI: 10.1128/Mcb.25.13.5523-5534.2005  0.562
2005 Zhao R, Davey M, Hsu YC, Kaplanek P, Tong A, Parsons AB, Krogan N, Cagney G, Mai D, Greenblatt J, Boone C, Emili A, Houry WA. Navigating the chaperone network: an integrative map of physical and genetic interactions mediated by the hsp90 chaperone. Cell. 120: 715-27. PMID 15766533 DOI: 10.1016/J.Cell.2004.12.024  0.607
2005 Emre NC, Ingvarsdottir K, Wyce A, Wood A, Krogan NJ, Henry KW, Li K, Marmorstein R, Greenblatt JF, Shilatifard A, Berger SL. Maintenance of low histone ubiquitylation by Ubp10 correlates with telomere-proximal Sir2 association and gene silencing. Molecular Cell. 17: 585-94. PMID 15721261 DOI: 10.1016/J.Molcel.2005.01.007  0.565
2005 Savchenko A, Krogan N, Cort JR, Evdokimova E, Lew JM, Yee AA, Sánchez-Pulido L, Andrade MA, Bochkarev A, Watson JD, Kennedy MA, Greenblatt J, Hughes T, Arrowsmith CH, Rommens JM, et al. The Shwachman-Bodian-Diamond syndrome protein family is involved in RNA metabolism. The Journal of Biological Chemistry. 280: 19213-20. PMID 15701634 DOI: 10.1074/Jbc.M414421200  0.577
2005 Butland G, Peregrín-Alvarez JM, Li J, Yang W, Yang X, Canadien V, Starostine A, Richards D, Beattie B, Krogan N, Davey M, Parkinson J, Greenblatt J, Emili A. Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature. 433: 531-7. PMID 15690043 DOI: 10.1038/Nature03239  0.611
2005 Ingvarsdottir K, Krogan NJ, Emre NC, Wyce A, Thompson NJ, Emili A, Hughes TR, Greenblatt JF, Berger SL. H2B ubiquitin protease Ubp8 and Sgf11 constitute a discrete functional module within the Saccharomyces cerevisiae SAGA complex. Molecular and Cellular Biology. 25: 1162-72. PMID 15657441 DOI: 10.1128/Mcb.25.3.1162-1172.2005  0.63
2005 Xiao T, Kao CF, Krogan NJ, Sun ZW, Greenblatt JF, Osley MA, Strahl BD. Histone H2B ubiquitylation is associated with elongating RNA polymerase II. Molecular and Cellular Biology. 25: 637-51. PMID 15632065 DOI: 10.1128/Mcb.25.2.637-651.2005  0.603
2005 Kong SE, Kobor MS, Krogan NJ, Somesh BP, Søgaard TM, Greenblatt JF, Svejstrup JQ. Interaction of Fcp1 phosphatase with elongating RNA polymerase II holoenzyme, enzymatic mechanism of action, and genetic interaction with elongator. The Journal of Biological Chemistry. 280: 4299-306. PMID 15563457 DOI: 10.1074/Jbc.M411071200  0.707
2005 Kim M, Krogan NJ, Vasiljeva L, Rando OJ, Nedea E, Greenblatt JF, Buratowski S. Erratum: The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II Nature. 433: 661-661. DOI: 10.1038/nature03307  0.458
2005 Emre, Berger, Ingvarsdottir K, Wyce A, Henry K, Li K, Marmorstein R, Wood A, Shilatifard A, Krogan NJ, Greenblatt JF. Link between histone deubiquitination and protection of telomeres Cancer Biology and Therapy. 4: 11DUMMY.  0.469
2004 Krogan NJ, Lam MH, Fillingham J, Keogh MC, Gebbia M, Li J, Datta N, Cagney G, Buratowski S, Emili A, Greenblatt JF. Proteasome involvement in the repair of DNA double-strand breaks. Molecular Cell. 16: 1027-34. PMID 15610744 DOI: 10.1016/J.Molcel.2004.11.033  0.788
2004 Morrison AJ, Highland J, Krogan NJ, Arbel-Eden A, Greenblatt JF, Haber JE, Shen X. INO80 and gamma-H2AX interaction links ATP-dependent chromatin remodeling to DNA damage repair. Cell. 119: 767-75. PMID 15607974 DOI: 10.1016/J.Cell.2004.11.037  0.576
2004 Zhang W, Morris QD, Chang R, Shai O, Bakowski MA, Mitsakakis N, Mohammad N, Robinson MD, Zirngibl R, Somogyi E, Laurin N, Eftekharpour E, Sat E, Grigull J, Pan Q, ... ... Krogan N, et al. The functional landscape of mouse gene expression. Journal of Biology. 3: 21. PMID 15588312 DOI: 10.1186/Jbiol16  0.546
2004 Kim M, Krogan NJ, Vasiljeva L, Rando OJ, Nedea E, Greenblatt JF, Buratowski S. The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II. Nature. 432: 517-22. PMID 15565157 DOI: 10.1038/Nature03041  0.537
2004 Krogan NJ, Baetz K, Keogh MC, Datta N, Sawa C, Kwok TC, Thompson NJ, Davey MG, Pootoolal J, Hughes TR, Emili A, Buratowski S, Hieter P, Greenblatt JF. Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4. Proceedings of the National Academy of Sciences of the United States of America. 101: 13513-8. PMID 15353583 DOI: 10.1073/Pnas.0405753101  0.762
2004 Mnaimneh S, Davierwala AP, Haynes J, Moffat J, Peng WT, Zhang W, Yang X, Pootoolal J, Chua G, Lopez A, Trochesset M, Morse D, Krogan NJ, Hiley SL, Li Z, et al. Exploration of essential gene functions via titratable promoter alleles. Cell. 118: 31-44. PMID 15242642 DOI: 10.1016/J.Cell.2004.06.013  0.591
2004 Sawa C, Nedea E, Krogan N, Wada T, Handa H, Greenblatt J, Buratowski S. Bromodomain factor 1 (Bdf1) is phosphorylated by protein kinase CK2. Molecular and Cellular Biology. 24: 4734-42. PMID 15143168 DOI: 10.1128/Mcb.24.11.4734-4742.2004  0.569
2004 Peng WT, Krogan NJ, Richards DP, Greenblatt JF, Hughes TR. ESF1 is required for 18S rRNA synthesis in Saccharomyces cerevisiae. Nucleic Acids Research. 32: 1993-9. PMID 15056729 DOI: 10.1093/Nar/Gkh518  0.569
2004 Tong AH, Lesage G, Bader GD, Ding H, Xu H, Xin X, Young J, Berriz GF, Brost RL, Chang M, Chen Y, Cheng X, Chua G, Friesen H, Goldberg DS, ... ... Krogan N, et al. Global mapping of the yeast genetic interaction network. Science (New York, N.Y.). 303: 808-13. PMID 14764870 DOI: 10.1126/Science.1091317  0.586
2004 Krogan NJ, Peng WT, Cagney G, Robinson MD, Haw R, Zhong G, Guo X, Zhang X, Canadien V, Richards DP, Beattie BK, Lalev A, Zhang W, Davierwala AP, Mnaimneh S, et al. High-definition macromolecular composition of yeast RNA-processing complexes. Molecular Cell. 13: 225-39. PMID 14759368 DOI: 10.1016/S1097-2765(04)00003-6  0.558
2004 Kim M, Ahn SH, Krogan NJ, Greenblatt JF, Buratowski S. Transitions in RNA polymerase II elongation complexes at the 3' ends of genes. The Embo Journal. 23: 354-64. PMID 14739930 DOI: 10.1038/Sj.Emboj.7600053  0.576
2004 Baetz KK, Krogan NJ, Emili A, Greenblatt J, Hieter P. The ctf13-30/CTF13 genomic haploinsufficiency modifier screen identifies the yeast chromatin remodeling complex RSC, which is required for the establishment of sister chromatid cohesion. Molecular and Cellular Biology. 24: 1232-44. PMID 14729968 DOI: 10.1128/Mcb.24.3.1232-1244.2003  0.577
2003 Krogan NJ, Keogh MC, Datta N, Sawa C, Ryan OW, Ding H, Haw RA, Pootoolal J, Tong A, Canadien V, Richards DP, Wu X, Emili A, Hughes TR, Buratowski S, et al. A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Molecular Cell. 12: 1565-76. PMID 14690608 DOI: 10.1016/S1097-2765(03)00497-0  0.769
2003 Jansen R, Yu H, Greenbaum D, Kluger Y, Krogan NJ, Chung S, Emili A, Snyder M, Greenblatt JF, Gerstein M. A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (New York, N.Y.). 302: 449-53. PMID 14564010 DOI: 10.1126/Science.1087361  0.557
2003 Peng WT, Robinson MD, Mnaimneh S, Krogan NJ, Cagney G, Morris Q, Davierwala AP, Grigull J, Yang X, Zhang W, Mitsakakis N, Ryan OW, Datta N, Jojic V, Pal C, et al. A panoramic view of yeast noncoding RNA processing. Cell. 113: 919-33. PMID 12837249 DOI: 10.1016/S0092-8674(03)00466-5  0.561
2003 Krogan NJ, Kim M, Tong A, Golshani A, Cagney G, Canadien V, Richards DP, Beattie BK, Emili A, Boone C, Shilatifard A, Buratowski S, Greenblatt J. Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II. Molecular and Cellular Biology. 23: 4207-18. PMID 12773564 DOI: 10.1128/Mcb.23.12.4207-4218.2003  0.57
2003 Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, Johnston M, Greenblatt JF, Shilatifard A. The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation. Molecular Cell. 11: 721-9. PMID 12667454 DOI: 10.1016/S1097-2765(03)00091-1  0.579
2003 Wood A, Krogan NJ, Dover J, Schneider J, Heidt J, Boateng MA, Dean K, Golshani A, Zhang Y, Greenblatt JF, Johnston M, Shilatifard A. Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Molecular Cell. 11: 267-74. PMID 12535539 DOI: 10.1016/S1097-2765(02)00802-X  0.565
2002 Krogan NJ, Kim M, Ahn SH, Zhong G, Kobor MS, Cagney G, Emili A, Shilatifard A, Buratowski S, Greenblatt JF. RNA polymerase II elongation factors of Saccharomyces cerevisiae: a targeted proteomics approach. Molecular and Cellular Biology. 22: 6979-92. PMID 12242279 DOI: 10.1128/Mcb.22.20.6979-6992.2002  0.722
2002 Krogan NJ, Dover J, Khorrami S, Greenblatt JF, Schneider J, Johnston M, Shilatifard A. COMPASS, a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression. The Journal of Biological Chemistry. 277: 10753-5. PMID 11805083 DOI: 10.1074/Jbc.C200023200  0.583
2001 Krogan NJ, Greenblatt JF. Characterization of a six-subunit holo-elongator complex required for the regulated expression of a group of genes in Saccharomyces cerevisiae. Molecular and Cellular Biology. 21: 8203-12. PMID 11689709 DOI: 10.1128/Mcb.21.23.8203-8212.2001  0.568
2001 Miller T, Krogan NJ, Dover J, Erdjument-Bromage H, Tempst P, Johnston M, Greenblatt JF, Shilatifard A. COMPASS: a complex of proteins associated with a trithorax-related SET domain protein. Proceedings of the National Academy of Sciences of the United States of America. 98: 12902-7. PMID 11687631 DOI: 10.1073/Pnas.231473398  0.605
1998 Krogan NJ, Zaharik ML, Neuhard J, Kelln RA. A combination of three mutations, dcd, pyrH, and cdd, establishes thymidine (Deoxyuridine) auxotrophy in thyA+ strains of Salmonella typhimurium. Journal of Bacteriology. 180: 5891-5. PMID 9811646 DOI: 10.1128/Jb.180.22.5891-5895.1998  0.684
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