Donald S. Kirkpatrick, Ph.D. - Publications

Affiliations: 
2003 University of Arizona, Tucson, AZ 
Area:
Toxicology

55 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
2016 de Almagro MC, Goncharov T, Izrael-Tomasevic A, Duttler S, Kist M, Varfolomeev E, Wu X, Lee WP, Murray J, Webster JD, Yu K, Kirkpatrick DS, Newton K, Vucic D. Coordinated ubiquitination and phosphorylation of RIP1 regulates necroptotic cell death. Cell Death and Differentiation. PMID 27518435 DOI: 10.1038/cdd.2016.78  0.96
2016 Gnad F, Wallin J, Edgar K, Doll S, Arnott D, Robillard L, Kirkpatrick DS, Stokes MP, Vijapurkar U, Hatzivassiliou G, Friedman LS, Belvin M. Quantitative phosphoproteomic analysis of the PI3K-regulated signaling network. Proteomics. PMID 27282143 DOI: 10.1002/pmic.201600118  0.96
2016 Bakalarski CE, Kirkpatrick DS. A Biologist's Field Guide to Multiplexed Quantitative Proteomics. Molecular & Cellular Proteomics : McP. PMID 26873251 DOI: 10.1074/mcp.O115.056986  0.96
2015 Yu K, Phu L, Varfolomeev E, Bustos D, Vucic D, Kirkpatrick DS. Immunoaffinity enrichment coupled to quantitative mass spectrometry reveals ubiquitin-mediated signaling events. Journal of Molecular Biology. 427: 2121-34. PMID 25861760 DOI: 10.1016/j.jmb.2015.03.018  0.96
2015 Sodhi JK, Wong S, Kirkpatrick DS, Liu L, Khojasteh SC, Hop CE, Barr JT, Jones JP, Halladay JS. A novel reaction mediated by human aldehyde oxidase: amide hydrolysis of GDC-0834. Drug Metabolism and Disposition: the Biological Fate of Chemicals. 43: 908-15. PMID 25845827 DOI: 10.1124/dmd.114.061804  0.96
2015 Cunningham CN, Baughman JM, Phu L, Tea JS, Yu C, Coons M, Kirkpatrick DS, Bingol B, Corn JE. USP30 and parkin homeostatically regulate atypical ubiquitin chains on mitochondria. Nature Cell Biology. 17: 160-9. PMID 25621951 DOI: 10.1038/ncb3097  0.96
2015 Rutz S, Kayagaki N, Phung QT, Eidenschenk C, Noubade R, Wang X, Lesch J, Lu R, Newton K, Huang OW, Cochran AG, Vasser M, Fauber BP, DeVoss J, Webster J, ... ... Kirkpatrick DS, et al. Deubiquitinase DUBA is a post-translational brake on interleukin-17 production in T cells. Nature. 518: 417-21. PMID 25470037 DOI: 10.1038/nature13979  0.96
2015 Varfolomeev E, Izrael-Tomasevic A, Yu K, Bustos D, Goncharov T, Belmont LD, Masselot A, Bakalarski CE, Kirkpatrick DS, Vucic D. Ubiquitination profiling identifies sensitivity factors for IAP antagonist treatment. The Biochemical Journal. 466: 45-54. PMID 25423073 DOI: 10.1042/BJ20141195  0.96
2014 Wilson C, Nicholes K, Bustos D, Lin E, Song Q, Stephan JP, Kirkpatrick DS, Settleman J. Overcoming EMT-associated resistance to anti-cancer drugs via Src/FAK pathway inhibition. Oncotarget. 5: 7328-41. PMID 25193862  0.96
2014 Dey A, Wu J, Kirkpatrick DS. Interrogation of in vivo protein-protein interactions using transgenic mouse models and stable isotope labeling. Methods in Molecular Biology (Clifton, N.J.). 1176: 179-90. PMID 25030928 DOI: 10.1007/978-1-4939-0992-6_15  0.96
2014 Krutauz D, Reis N, Nakasone MA, Siman P, Zhang D, Kirkpatrick DS, Gygi SP, Brik A, Fushman D, Glickman MH. Extended ubiquitin species are protein-based DUB inhibitors. Nature Chemical Biology. 10: 664-70. PMID 24997605 DOI: 10.1038/nchembio.1574  0.96
2014 Bingol B, Tea JS, Phu L, Reichelt M, Bakalarski CE, Song Q, Foreman O, Kirkpatrick DS, Sheng M. The mitochondrial deubiquitinase USP30 opposes parkin-mediated mitophagy. Nature. 510: 370-5. PMID 24896179 DOI: 10.1038/nature13418  0.96
2014 Anania VG, Pham VC, Huang X, Masselot A, Lill JR, Kirkpatrick DS. Peptide level immunoaffinity enrichment enhances ubiquitination site identification on individual proteins. Molecular & Cellular Proteomics : McP. 13: 145-56. PMID 24142993 DOI: 10.1074/mcp.M113.031062  0.96
2013 Kirkpatrick DS, Bustos DJ, Dogan T, Chan J, Phu L, Young A, Friedman LS, Belvin M, Song Q, Bakalarski CE, Hoeflich KP. Phosphoproteomic characterization of DNA damage response in melanoma cells following MEK/PI3K dual inhibition. Proceedings of the National Academy of Sciences of the United States of America. 110: 19426-31. PMID 24218548 DOI: 10.1073/pnas.1309473110  0.96
2013 Pozniak CD, Sengupta Ghosh A, Gogineni A, Hanson JE, Lee SH, Larson JL, Solanoy H, Bustos D, Li H, Ngu H, Jubb AM, Ayalon G, Wu J, Scearce-Levie K, Zhou Q, ... ... Kirkpatrick DS, et al. Dual leucine zipper kinase is required for excitotoxicity-induced neuronal degeneration. The Journal of Experimental Medicine. 210: 2553-67. PMID 24166713 DOI: 10.1084/jem.20122832  0.96
2013 Huntwork-Rodriguez S, Wang B, Watkins T, Ghosh AS, Pozniak CD, Bustos D, Newton K, Kirkpatrick DS, Lewcock JW. JNK-mediated phosphorylation of DLK suppresses its ubiquitination to promote neuronal apoptosis. The Journal of Cell Biology. 202: 747-63. PMID 23979718 DOI: 10.1083/jcb.201303066  0.96
2013 Phillips AH, Zhang Y, Cunningham CN, Zhou L, Forrest WF, Liu PS, Steffek M, Lee J, Tam C, Helgason E, Murray JM, Kirkpatrick DS, Fairbrother WJ, Corn JE. Conformational dynamics control ubiquitin-deubiquitinase interactions and influence in vivo signaling. Proceedings of the National Academy of Sciences of the United States of America. 110: 11379-84. PMID 23801757 DOI: 10.1073/pnas.1302407110  0.96
2013 Goncharov T, Niessen K, de Almagro MC, Izrael-Tomasevic A, Fedorova AV, Varfolomeev E, Arnott D, Deshayes K, Kirkpatrick DS, Vucic D. OTUB1 modulates c-IAP1 stability to regulate signalling pathways. The Embo Journal. 32: 1103-14. PMID 23524849 DOI: 10.1038/emboj.2013.62  0.96
2013 Tran H, Bustos D, Yeh R, Rubinfeld B, Lam C, Shriver S, Zilberleyb I, Lee MW, Phu L, Sarkar AA, Zohn IE, Wertz IE, Kirkpatrick DS, Polakis P. HectD1 E3 ligase modifies adenomatous polyposis coli (APC) with polyubiquitin to promote the APC-axin interaction. The Journal of Biological Chemistry. 288: 3753-67. PMID 23277359 DOI: 10.1074/jbc.M112.415240  0.96
2012 Sheng Z, Zhang S, Bustos D, Kleinheinz T, Le Pichon CE, Dominguez SL, Solanoy HO, Drummond J, Zhang X, Ding X, Cai F, Song Q, Li X, Yue Z, van der Brug MP, ... ... Kirkpatrick DS, et al. Ser1292 autophosphorylation is an indicator of LRRK2 kinase activity and contributes to the cellular effects of PD mutations. Science Translational Medicine. 4: 164ra161. PMID 23241745 DOI: 10.1126/scitranslmed.3004485  0.96
2012 Dey A, Seshasayee D, Noubade R, French DM, Liu J, Chaurushiya MS, Kirkpatrick DS, Pham VC, Lill JR, Bakalarski CE, Wu J, Phu L, Katavolos P, LaFave LM, Abdel-Wahab O, et al. Loss of the tumor suppressor BAP1 causes myeloid transformation. Science (New York, N.Y.). 337: 1541-6. PMID 22878500 DOI: 10.1126/science.1221711  0.96
2012 Bustos D, Bakalarski CE, Yang Y, Peng J, Kirkpatrick DS. Characterizing ubiquitination sites by peptide-based immunoaffinity enrichment. Molecular & Cellular Proteomics : McP. 11: 1529-40. PMID 22729469 DOI: 10.1074/mcp.R112.019117  0.96
2012 Pham VC, Pitti R, Anania VG, Bakalarski CE, Bustos D, Jhunjhunwala S, Phung QT, Yu K, Forrest WF, Kirkpatrick DS, Ashkenazi A, Lill JR. Complementary proteomic tools for the dissection of apoptotic proteolysis events. Journal of Proteome Research. 11: 2947-54. PMID 22432722 DOI: 10.1021/pr300035k  0.96
2012 Dimova NV, Hathaway NA, Lee BH, Kirkpatrick DS, Berkowitz ML, Gygi SP, Finley D, King RW. APC/C-mediated multiple monoubiquitylation provides an alternative degradation signal for cyclin B1. Nature Cell Biology. 14: 168-76. PMID 22286100 DOI: 10.1038/ncb2425  0.96
2012 Matsumoto ML, Dong KC, Yu C, Phu L, Gao X, Hannoush RN, Hymowitz SG, Kirkpatrick DS, Dixit VM, Kelley RF. Engineering and structural characterization of a linear polyubiquitin-specific antibody. Journal of Molecular Biology. 418: 134-44. PMID 22227388 DOI: 10.1016/j.jmb.2011.12.053  0.96
2011 Dong KC, Helgason E, Yu C, Phu L, Arnott DP, Bosanac I, Compaan DM, Huang OW, Fedorova AV, Kirkpatrick DS, Hymowitz SG, Dueber EC. Preparation of distinct ubiquitin chain reagents of high purity and yield. Structure (London, England : 1993). 19: 1053-63. PMID 21827942 DOI: 10.1016/j.str.2011.06.010  0.96
2011 Callow MG, Tran H, Phu L, Lau T, Lee J, Sandoval WN, Liu PS, Bheddah S, Tao J, Lill JR, Hongo JA, Davis D, Kirkpatrick DS, Polakis P, Costa M. Ubiquitin ligase RNF146 regulates tankyrase and Axin to promote Wnt signaling. Plos One. 6: e22595. PMID 21799911 DOI: 10.1371/journal.pone.0022595  0.96
2011 Huang X, Summers MK, Pham V, Lill JR, Liu J, Lee G, Kirkpatrick DS, Jackson PK, Fang G, Dixit VM. Deubiquitinase USP37 is activated by CDK2 to antagonize APC(CDH1) and promote S phase entry. Molecular Cell. 42: 511-23. PMID 21596315 DOI: 10.1016/j.molcel.2011.03.027  0.96
2011 Ziv I, Matiuhin Y, Kirkpatrick DS, Erpapazoglou Z, Leon S, Pantazopoulou M, Kim W, Gygi SP, Haguenauer-Tsapis R, Reis N, Glickman MH, Kleifeld O. A perturbed ubiquitin landscape distinguishes between ubiquitin in trafficking and in proteolysis. Molecular & Cellular Proteomics : McP. 10: M111.009753. PMID 21427232 DOI: 10.1074/mcp.M111.009753  0.96
2011 Bosanac I, Phu L, Pan B, Zilberleyb I, Maurer B, Dixit VM, Hymowitz SG, Kirkpatrick DS. Modulation of K11-linkage formation by variable loop residues within UbcH5A. Journal of Molecular Biology. 408: 420-31. PMID 21396940 DOI: 10.1016/j.jmb.2011.03.011  0.96
2011 Westlake CJ, Baye LM, Nachury MV, Wright KJ, Ervin KE, Phu L, Chalouni C, Beck JS, Kirkpatrick DS, Slusarski DC, Sheffield VC, Scheller RH, Jackson PK. Primary cilia membrane assembly is initiated by Rab11 and transport protein particle II (TRAPPII) complex-dependent trafficking of Rabin8 to the centrosome. Proceedings of the National Academy of Sciences of the United States of America. 108: 2759-64. PMID 21273506 DOI: 10.1073/pnas.1018823108  0.96
2011 Chu CW, Hou F, Zhang J, Phu L, Loktev AV, Kirkpatrick DS, Jackson PK, Zhao Y, Zou H. A novel acetylation of β-tubulin by San modulates microtubule polymerization via down-regulating tubulin incorporation. Molecular Biology of the Cell. 22: 448-56. PMID 21177827 DOI: 10.1091/mbc.E10-03-0203  0.96
2011 Phu L, Izrael-Tomasevic A, Matsumoto ML, Bustos D, Dynek JN, Fedorova AV, Bakalarski CE, Arnott D, Deshayes K, Dixit VM, Kelley RF, Vucic D, Kirkpatrick DS. Improved quantitative mass spectrometry methods for characterizing complex ubiquitin signals. Molecular & Cellular Proteomics : McP. 10: M110.003756. PMID 21048196 DOI: 10.1074/mcp.M110.003756  0.96
2010 Dynek JN, Goncharov T, Dueber EC, Fedorova AV, Izrael-Tomasevic A, Phu L, Helgason E, Fairbrother WJ, Deshayes K, Kirkpatrick DS, Vucic D. c-IAP1 and UbcH5 promote K11-linked polyubiquitination of RIP1 in TNF signalling. The Embo Journal. 29: 4198-209. PMID 21113135 DOI: 10.1038/emboj.2010.300  0.96
2010 Bosanac I, Wertz IE, Pan B, Yu C, Kusam S, Lam C, Phu L, Phung Q, Maurer B, Arnott D, Kirkpatrick DS, Dixit VM, Hymowitz SG. Ubiquitin binding to A20 ZnF4 is required for modulation of NF-κB signaling. Molecular Cell. 40: 548-57. PMID 21095585 DOI: 10.1016/j.molcel.2010.10.009  0.96
2010 Matsumoto ML, Wickliffe KE, Dong KC, Yu C, Bosanac I, Bustos D, Phu L, Kirkpatrick DS, Hymowitz SG, Rape M, Kelley RF, Dixit VM. K11-linked polyubiquitination in cell cycle control revealed by a K11 linkage-specific antibody. Molecular Cell. 39: 477-84. PMID 20655260 DOI: 10.1016/j.molcel.2010.07.001  0.96
2010 Isasa M, Katz EJ, Kim W, Yugo V, González S, Kirkpatrick DS, Thomson TM, Finley D, Gygi SP, Crosas B. Monoubiquitination of RPN10 regulates substrate recruitment to the proteasome. Molecular Cell. 38: 733-45. PMID 20542005 DOI: 10.1016/j.molcel.2010.05.001  0.96
2009 Kirkpatrick DS, Dixit VM. GPS navigation of the protein-stability landscape. Nature Biotechnology. 27: 46-8. PMID 19131998 DOI: 10.1038/nbt0109-46  0.96
2009 Blankenship JW, Varfolomeev E, Goncharov T, Fedorova AV, Kirkpatrick DS, Izrael-Tomasevic A, Phu L, Arnott D, Aghajan M, Zobel K, Bazan JF, Fairbrother WJ, Deshayes K, Vucic D. Ubiquitin binding modulates IAP antagonist-stimulated proteasomal degradation of c-IAP1 and c-IAP2(1). The Biochemical Journal. 417: 149-60. PMID 18939944 DOI: 10.1042/BJ20081885  0.96
2008 Matiuhin Y, Kirkpatrick DS, Ziv I, Kim W, Dakshinamurthy A, Kleifeld O, Gygi SP, Reis N, Glickman MH. Extraproteasomal Rpn10 restricts access of the polyubiquitin-binding protein Dsk2 to proteasome. Molecular Cell. 32: 415-25. PMID 18995839 DOI: 10.1016/j.molcel.2008.10.011  0.96
2008 Sliter DA, Kubota K, Kirkpatrick DS, Alzayady KJ, Gygi SP, Wojcikiewicz RJ. Mass spectrometric analysis of type 1 inositol 1,4,5-trisphosphate receptor ubiquitination. The Journal of Biological Chemistry. 283: 35319-28. PMID 18955483 DOI: 10.1074/jbc.M807288200  0.96
2008 Newton K, Matsumoto ML, Wertz IE, Kirkpatrick DS, Lill JR, Tan J, Dugger D, Gordon N, Sidhu SS, Fellouse FA, Komuves L, French DM, Ferrando RE, Lam C, Compaan D, et al. Ubiquitin chain editing revealed by polyubiquitin linkage-specific antibodies. Cell. 134: 668-78. PMID 18724939 DOI: 10.1016/j.cell.2008.07.039  0.96
2008 Wainszelbaum MJ, Charron AJ, Kong C, Kirkpatrick DS, Srikanth P, Barbieri MA, Gygi SP, Stahl PD. The hominoid-specific oncogene TBC1D3 activates Ras and modulates epidermal growth factor receptor signaling and trafficking. The Journal of Biological Chemistry. 283: 13233-42. PMID 18319245 DOI: 10.1074/jbc.M800234200  0.96
2008 Tan JM, Wong ES, Kirkpatrick DS, Pletnikova O, Ko HS, Tay SP, Ho MW, Troncoso J, Gygi SP, Lee MK, Dawson VL, Dawson TM, Lim KL. Lysine 63-linked ubiquitination promotes the formation and autophagic clearance of protein inclusions associated with neurodegenerative diseases. Human Molecular Genetics. 17: 431-9. PMID 17981811 DOI: 10.1093/hmg/ddm320  0.96
2007 Kleijnen MF, Kirkpatrick DS, Gygi SP. The ubiquitin-proteasome system regulates membrane fusion of yeast vacuoles. The Embo Journal. 26: 275-87. PMID 17183369 DOI: 10.1038/sj.emboj.7601486  0.96
2006 Crosas B, Hanna J, Kirkpatrick DS, Zhang DP, Tone Y, Hathaway NA, Buecker C, Leggett DS, Schmidt M, King RW, Gygi SP, Finley D. Ubiquitin chains are remodeled at the proteasome by opposing ubiquitin ligase and deubiquitinating activities. Cell. 127: 1401-13. PMID 17190603 DOI: 10.1016/j.cell.2006.09.051  0.96
2006 Hanna J, Hathaway NA, Tone Y, Crosas B, Elsasser S, Kirkpatrick DS, Leggett DS, Gygi SP, King RW, Finley D. Deubiquitinating enzyme Ubp6 functions noncatalytically to delay proteasomal degradation. Cell. 127: 99-111. PMID 17018280 DOI: 10.1016/j.cell.2006.07.038  0.96
2006 Kirkpatrick DS, Hathaway NA, Hanna J, Elsasser S, Rush J, Finley D, King RW, Gygi SP. Quantitative analysis of in vitro ubiquitinated cyclin B1 reveals complex chain topology. Nature Cell Biology. 8: 700-10. PMID 16799550 DOI: 10.1038/ncb1436  0.96
2005 Kirkpatrick DS, Denison C, Gygi SP. Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics. Nature Cell Biology. 7: 750-7. PMID 16056266 DOI: 10.1038/ncb0805-750  0.96
2005 Kirkpatrick DS, Weldon SF, Tsaprailis G, Liebler DC, Gandolfi AJ. Proteomic identification of ubiquitinated proteins from human cells expressing His-tagged ubiquitin. Proteomics. 5: 2104-11. PMID 15852347 DOI: 10.1002/pmic.200401089  0.96
2005 Kirkpatrick DS, Gerber SA, Gygi SP. The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods (San Diego, Calif.). 35: 265-73. PMID 15722223 DOI: 10.1016/j.ymeth.2004.08.018  0.96
2005 Denison C, Kirkpatrick DS, Gygi SP. Proteomic insights into ubiquitin and ubiquitin-like proteins. Current Opinion in Chemical Biology. 9: 69-75. PMID 15701456 DOI: 10.1016/j.cbpa.2004.10.010  0.96
2004 Tanny JC, Kirkpatrick DS, Gerber SA, Gygi SP, Moazed D. Budding yeast silencing complexes and regulation of Sir2 activity by protein-protein interactions. Molecular and Cellular Biology. 24: 6931-46. PMID 15282295 DOI: 10.1128/MCB.24.16.6931-6946.2004  0.96
2003 Catania JM, Parrish AR, Kirkpatrick DS, Chitkara M, Bowden GT, Henderson CJ, Wolf CR, Clark AJ, Brendel K, Fisher RL, Gandolfi AJ. Precision-cut tissue slices from transgenic mice as an in vitro toxicology system. Toxicology in Vitro : An International Journal Published in Association With Bibra. 17: 201-5. PMID 12650674 DOI: 10.1016/S0887-2333(03)00004-3  0.96
2003 Kirkpatrick DS, Dale KV, Catania JM, Gandolfi AJ. Low-level arsenite causes accumulation of ubiquitinated proteins in rabbit renal cortical slices and HEK293 cells. Toxicology and Applied Pharmacology. 186: 101-9. PMID 12639501 DOI: 10.1016/S0041-008X(02)00019-4  0.96
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