Scott Shaffer - Publications

Affiliations: 
1996-2001 University of Washington, Seattle, Seattle, WA 

54 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
2018 Taylor GT, Ackerman JT, Shaffer SA. Egg turning behavior and incubation temperature in Forster's terns in relation to mercury contamination. Plos One. 13: e0191390. PMID 29447185 DOI: 10.1371/journal.pone.0191390  0.48
2016 Andrade WA, Agarwal S, Mo S, Shaffer SA, Dillard JP, Schmidt T, Hornung V, Fitzgerald KA, Kurt-Jones EA, Golenbock DT. Type I Interferon Induction by Neisseriagonorrhoeae: Dual Requirement of Cyclic GMP-AMP Synthase and Toll-like Receptor 4. Cell Reports. PMID 27264171 DOI: 10.1016/j.celrep.2016.05.030  0.96
2016 Deligiannidis KM, Kroll-Desrosiers AR, Mo S, Nguyen HP, Svenson A, Jaitly N, Hall JE, Barton BA, Rothschild AJ, Shaffer SA. Peripartum neuroactive steroid and γ-aminobutyric acid profiles in women at-risk for postpartum depression. Psychoneuroendocrinology. 70: 98-107. PMID 27209438 DOI: 10.1016/j.psyneuen.2016.05.010  0.96
2016 Hayashi JM, Luo CY, Mayfield JA, Hsu T, Fukuda T, Walfield AL, Giffen SR, Leszyk JD, Baer CE, Bennion OT, Madduri A, Shaffer SA, Aldridge BB, Sassetti CM, Sandler SJ, et al. Spatially distinct and metabolically active membrane domain in mycobacteria. Proceedings of the National Academy of Sciences of the United States of America. PMID 27114527 DOI: 10.1073/pnas.1525165113  0.96
2016 Clement CC, Becerra A, Yin L, Zolla V, Huang L, Merlin S, Follenzi A, Shaffer SA, Stern LJ, Santambrogio L. The Dendritic Cell MHC II Peptidome Derives from a Variety of Processing Pathways and Includes Peptides with a Broad Spectrum of HLA-DM Sensitivity. The Journal of Biological Chemistry. PMID 26740625 DOI: 10.1074/jbc.M115.655738  0.96
2015 Dubuke ML, Maniatis S, Shaffer SA, Munson M. The Exocyst Subunit Sec6 Interacts with Assembled Exocytic SNARE Complexes. The Journal of Biological Chemistry. PMID 26446795 DOI: 10.1074/jbc.M115.673806  0.96
2015 Vodicka P, Mo S, Tousley A, Green KM, Sapp E, Iuliano M, Sadri-Vakili G, Shaffer SA, Aronin N, DiFiglia M, Kegel-Gleason KB. Mass Spectrometry Analysis of Wild-Type and Knock-in Q140/Q140 Huntington's Disease Mouse Brains Reveals Changes in Glycerophospholipids Including Alterations in Phosphatidic Acid and Lyso-Phosphatidic Acid. Journal of Huntington's Disease. 4: 187-201. PMID 26397899 DOI: 10.3233/JHD-150149  0.96
2015 Colon K, Perez-Laspiur J, Quiles R, Rodriguez Y, Wojna V, Shaffer SA, Leszyk J, Skolasky RL, Melendez LM. Macrophage secretome from women with HIV-associated neurocognitive disorders. Proteomics. Clinical Applications. PMID 26220577 DOI: 10.1002/prca.201400203  0.96
2015 Cantres-Rosario YM, Hernandez N, Negron K, Perez-Laspiur J, Leszyk J, Shaffer SA, Meléndez LM. Interacting partners of macrophage-secreted cathepsin B contribute to HIV-induced neuronal apoptosis. Aids (London, England). 29: 2081-92. PMID 26208400 DOI: 10.1097/QAD.0000000000000823  0.96
2015 Nasipak BT, Padilla-Benavides T, Green KM, Leszyk JD, Mao W, Konda S, Sif S, Shaffer SA, Ohkawa Y, Imbalzano AN. Opposing calcium-dependent signalling pathways control skeletal muscle differentiation by regulating a chromatin remodelling enzyme. Nature Communications. 6: 7441. PMID 26081415 DOI: 10.1038/ncomms8441  0.96
2015 Nambi S, Long JE, Mishra BB, Baker R, Murphy KC, Olive AJ, Nguyen HP, Shaffer SA, Sassetti CM. The Oxidative Stress Network of Mycobacterium tuberculosis Reveals Coordination between Radical Detoxification Systems. Cell Host & Microbe. 17: 829-37. PMID 26067605 DOI: 10.1016/j.chom.2015.05.008  0.96
2015 Yang S, Quaresma AJ, Nickerson JA, Green KM, Shaffer SA, Imbalzano AN, Martin-Buley LA, Lian JB, Stein JL, van Wijnen AJ, Stein GS. Subnuclear domain proteins in cancer cells support the functions of RUNX2 in the DNA damage response. Journal of Cell Science. 128: 728-40. PMID 25609707 DOI: 10.1242/jcs.160051  0.96
2014 Canterbury JD, Merrihew GE, MacCoss MJ, Goodlett DR, Shaffer SA. Comparison of data acquisition strategies on quadrupole ion trap instrumentation for shotgun proteomics. Journal of the American Society For Mass Spectrometry. 25: 2048-59. PMID 25261218 DOI: 10.1007/s13361-014-0981-1  0.96
2014 Rotunno MS, Auclair JR, Maniatis S, Shaffer SA, Agar J, Bosco DA. Identification of a misfolded region in superoxide dismutase 1 that is exposed in amyotrophic lateral sclerosis. The Journal of Biological Chemistry. 289: 28527-38. PMID 25164820 DOI: 10.1074/jbc.M114.581801  0.96
2014 Swiderski K, Shaffer SA, Gallis B, Odom GL, Arnett AL, Scott Edgar J, Baum DM, Chee A, Naim T, Gregorevic P, Murphy KT, Moody J, Goodlett DR, Lynch GS, Chamberlain JS. Phosphorylation within the cysteine-rich region of dystrophin enhances its association with β-dystroglycan and identifies a potential novel therapeutic target for skeletal muscle wasting. Human Molecular Genetics. 23: 6697-711. PMID 25082828 DOI: 10.1093/hmg/ddu388  0.96
2014 Sullivan DA, Liu Y, Kam WR, Ding J, Green KM, Shaffer SA, Hatton MP, Liu S. Serum-induced differentiation of human meibomian gland epithelial cells. Investigative Ophthalmology & Visual Science. 55: 3866-77. PMID 24867579 DOI: 10.1167/iovs.13-13407  0.96
2014 Ambade A, Catalano D, Lim A, Kopoyan A, Shaffer SA, Mandrekar P. Inhibition of heat shock protein 90 alleviates steatosis and macrophage activation in murine alcoholic liver injury. Journal of Hepatology. 61: 903-11. PMID 24859453 DOI: 10.1016/j.jhep.2014.05.024  0.96
2013 Valencia A, Sapp E, Kimm JS, McClory H, Ansong KA, Yohrling G, Kwak S, Kegel KB, Green KM, Shaffer SA, Aronin N, DiFiglia M. Striatal synaptosomes from Hdh140Q/140Q knock-in mice have altered protein levels, novel sites of methionine oxidation, and excess glutamate release after stimulation. Journal of Huntington's Disease. 2: 459-75. PMID 24696705 DOI: 10.3233/JHD-130080  0.96
2013 Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HC, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, et al. Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers. Journal of Proteome Research. 12: 4351-65. PMID 24004147 DOI: 10.1021/pr400307u  0.96
2013 Deligiannidis KM, Sikoglu EM, Shaffer SA, Frederick B, Svenson AE, Kopoyan A, Kosma CA, Rothschild AJ, Moore CM. GABAergic neuroactive steroids and resting-state functional connectivity in postpartum depression: a preliminary study. Journal of Psychiatric Research. 47: 816-28. PMID 23499388 DOI: 10.1016/j.jpsychires.2013.02.010  0.96
2013 Ivanov AR, Colangelo CM, Dufresne CP, Friedman DB, Lilley KS, Mechtler K, Phinney BS, Rose KL, Rudnick PA, Searle BC, Shaffer SA, Weintraub ST. Interlaboratory studies and initiatives developing standards for proteomics. Proteomics. 13: 904-9. PMID 23319436 DOI: 10.1002/pmic.201200532  0.96
2012 Zhao C, Gao Q, Roberts AG, Shaffer SA, Doneanu CE, Xue S, Goodlett DR, Nelson SD, Atkins WM. Cross-linking mass spectrometry and mutagenesis confirm the functional importance of surface interactions between CYP3A4 and holo/apo cytochrome b(5). Biochemistry. 51: 9488-500. PMID 23150942 DOI: 10.1021/bi301069r  0.96
2012 Rudra D, deRoos P, Chaudhry A, Niec RE, Arvey A, Samstein RM, Leslie C, Shaffer SA, Goodlett DR, Rudensky AY. Transcription factor Foxp3 and its protein partners form a complex regulatory network. Nature Immunology. 13: 1010-9. PMID 22922362 DOI: 10.1038/ni.2402  0.96
2012 Paquette N, Conlon J, Sweet C, Rus F, Wilson L, Pereira A, Rosadini CV, Goutagny N, Weber AN, Lane WS, Shaffer SA, Maniatis S, Fitzgerald KA, Stuart L, Silverman N. Serine/threonine acetylation of TGFβ-activated kinase (TAK1) by Yersinia pestis YopJ inhibits innate immune signaling. Proceedings of the National Academy of Sciences of the United States of America. 109: 12710-5. PMID 22802624 DOI: 10.1073/pnas.1008203109  0.96
2012 Xie J, Peng M, Guillemette S, Quan S, Maniatis S, Wu Y, Venkatesh A, Shaffer SA, Brosh RM, Cantor SB. FANCJ/BACH1 acetylation at lysine 1249 regulates the DNA damage response. Plos Genetics. 8: e1002786. PMID 22792074 DOI: 10.1371/journal.pgen.1002786  0.96
2012 Li Y, Powell DA, Shaffer SA, Rasko DA, Pelletier MR, Leszyk JD, Scott AJ, Masoudi A, Goodlett DR, Wang X, Raetz CR, Ernst RK. LPS remodeling is an evolved survival strategy for bacteria. Proceedings of the National Academy of Sciences of the United States of America. 109: 8716-21. PMID 22586119 DOI: 10.1073/pnas.1202908109  0.96
2012 Keeler AM, Conlon T, Walter G, Zeng H, Shaffer SA, Dungtao F, Erger K, Cossette T, Tang Q, Mueller C, Flotte TR. Long-term correction of very long-chain acyl-coA dehydrogenase deficiency in mice using AAV9 gene therapy. Molecular Therapy : the Journal of the American Society of Gene Therapy. 20: 1131-8. PMID 22395529 DOI: 10.1038/mt.2012.39  0.96
2011 Foss EJ, Radulovic D, Shaffer SA, Goodlett DR, Kruglyak L, Bedalov A. Genetic variation shapes protein networks mainly through non-transcriptional mechanisms. Plos Biology. 9: e1001144. PMID 21909241 DOI: 10.1371/journal.pbio.1001144  0.96
2011 Thatcher JE, Buttrick B, Shaffer SA, Shimshoni JA, Goodlett DR, Nelson WL, Isoherranen N. Substrate specificity and ligand interactions of CYP26A1, the human liver retinoic acid hydroxylase. Molecular Pharmacology. 80: 228-39. PMID 21521770 DOI: 10.1124/mol.111.072413  0.96
2011 Ting YS, Shaffer SA, Jones JW, Ng WV, Ernst RK, Goodlett DR. Automated lipid A structure assignment from hierarchical tandem mass spectrometry data. Journal of the American Society For Mass Spectrometry. 22: 856-66. PMID 21472520 DOI: 10.1007/s13361-010-0055-y  0.96
2011 Panchaud A, Jung S, Shaffer SA, Aitchison JD, Goodlett DR. Faster, quantitative, and accurate precursor acquisition independent from ion count. Analytical Chemistry. 83: 2250-7. PMID 21341720 DOI: 10.1021/ac103079q  0.96
2011 Chu LJ, Chen MC, Setter J, Tsai YS, Yang H, Fang X, Ting YS, Shaffer SA, Taylor GK, von Haller PD, Goodlett DR, Ng WV. New structural proteins of Halobacterium salinarum gas vesicle revealed by comparative proteomics analysis. Journal of Proteome Research. 10: 1170-8. PMID 21158390 DOI: 10.1021/pr1009383  0.96
2010 Chakrabarti L, Zahra R, Jackson SM, Kazemi-Esfarjani P, Sopher BL, Mason AG, Toneff T, Ryu S, Shaffer S, Kansy JW, Eng J, Merrihew G, MacCoss MJ, Murphy A, Goodlett DR, et al. Mitochondrial dysfunction in NnaD mutant flies and Purkinje cell degeneration mice reveals a role for Nna proteins in neuronal bioenergetics. Neuron. 66: 835-47. PMID 20620870 DOI: 10.1016/j.neuron.2010.05.024  0.96
2010 Heron SR, Wilson R, Shaffer SA, Goodlett DR, Cooper JM. Surface acoustic wave nebulization of peptides as a microfluidic interface for mass spectrometry. Analytical Chemistry. 82: 3985-9. PMID 20364823 DOI: 10.1021/ac100372c  0.96
2010 Panchaud A, Singh P, Shaffer SA, Goodlett DR. xComb: a cross-linked peptide database approach to protein-protein interaction analysis. Journal of Proteome Research. 9: 2508-15. PMID 20302351 DOI: 10.1021/pr9011816  0.96
2010 Parra MC, Shaffer SA, Hajjar AM, Gallis BM, Hager A, Goodlett DR, Guina T, Miller S, Collins CM. Identification, cloning, expression, and purification of Francisella lpp3: an immunogenic lipoprotein. Microbiological Research. 165: 531-45. PMID 20006480 DOI: 10.1016/j.micres.2009.11.004  0.96
2009 Nunn BL, Aker JR, Shaffer SA, Tsai S, Strzepek RF, Boyd PW, Freeman TL, Brittnacher M, Malmström L, Goodlett DR. Deciphering diatom biochemical pathways via whole-cell proteomics. Aquatic Microbial Ecology : International Journal. 55: 241-253. PMID 19829762 DOI: 10.3354/ame01284  0.96
2009 Reimel BA, Pan S, May DH, Shaffer SA, Goodlett DR, McIntosh MW, Yerian LM, Bronner MP, Chen R, Brentnall TA. Proteomics on Fixed Tissue Specimens - A Review. Current Proteomics. 6: 63-69. PMID 19829741 DOI: 10.2174/157016409787847420  0.96
2009 Tsai YS, Scherl A, Shaw JL, MacKay CL, Shaffer SA, Langridge-Smith PR, Goodlett DR. Precursor ion independent algorithm for top-down shotgun proteomics. Journal of the American Society For Mass Spectrometry. 20: 2154-66. PMID 19773183 DOI: 10.1016/j.jasms.2009.07.024  0.96
2009 Panchaud A, Scherl A, Shaffer SA, von Haller PD, Kulasekara HD, Miller SI, Goodlett DR. Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean. Analytical Chemistry. 81: 6481-8. PMID 19572557 DOI: 10.1021/ac900888s  0.96
2009 Moore NH, Costa LG, Shaffer SA, Goodlett DR, Guizzetti M. Shotgun proteomics implicates extracellular matrix proteins and protease systems in neuronal development induced by astrocyte cholinergic stimulation. Journal of Neurochemistry. 108: 891-908. PMID 19077055 DOI: 10.1111/j.1471-4159.2008.05836.x  0.96
2009 Hengel SM, Shaffer SA, Nunn BL, Goodlett DR. Tandem mass spectrometry investigation of ADP-ribosylated kemptide. Journal of the American Society For Mass Spectrometry. 20: 477-83. PMID 19070509 DOI: 10.1016/j.jasms.2008.10.025  0.96
2009 Goo YA, Liu AY, Ryu S, Shaffer SA, Malmström L, Page L, Nguyen LT, Doneanu CE, Goodlett DR. Identification of secreted glycoproteins of human prostate and bladder stromal cells by comparative quantitative proteomics. The Prostate. 69: 49-61. PMID 18792917 DOI: 10.1002/pros.20853  0.96
2008 Ryu S, Gallis B, Goo YA, Shaffer SA, Radulovic D, Goodlett DR. Comparison of a label-free quantitative proteomic method based on peptide ion current area to the isotope coded affinity tag method. Cancer Informatics. 6: 243-55. PMID 19259412  0.96
2008 Gao Q, Xue S, Shaffer SA, Doneanu CE, Goodlett DR, Nelson SD. Minimize the detection of false positives by the software program DetectShift for 18O-labeled cross-linked peptide analysis. European Journal of Mass Spectrometry (Chichester, England). 14: 275-80. PMID 19023145 DOI: 10.1255/ejms.939  0.96
2008 Singh P, Shaffer SA, Scherl A, Holman C, Pfuetzner RA, Larson Freeman TJ, Miller SI, Hernandez P, Appel RD, Goodlett DR. Characterization of protein cross-links via mass spectrometry and an open-modification search strategy. Analytical Chemistry. 80: 8799-806. PMID 18947195 DOI: 10.1021/ac801646f  0.96
2008 Jones JW, Shaffer SA, Ernst RK, Goodlett DR, Turecek F. Determination of pyrophosphorylated forms of lipid A in Gram-negative bacteria using a multivaried mass spectrometric approach. Proceedings of the National Academy of Sciences of the United States of America. 105: 12742-7. PMID 18753624 DOI: 10.1073/pnas.0800445105  0.96
2008 Scherl A, Tsai YS, Shaffer SA, Goodlett DR. Increasing information from shotgun proteomic data by accounting for misassigned precursor ion masses. Proteomics. 8: 2791-7. PMID 18655048 DOI: 10.1002/pmic.200800045  0.96
2008 Scherl A, Shaffer SA, Taylor GK, Hernandez P, Appel RD, Binz PA, Goodlett DR. On the benefits of acquiring peptide fragment ions at high measured mass accuracy. Journal of the American Society For Mass Spectrometry. 19: 891-901. PMID 18417358 DOI: 10.1016/j.jasms.2008.02.005  0.96
2008 Rohmer L, Guina T, Chen J, Gallis B, Taylor GK, Shaffer SA, Miller SI, Brittnacher MJ, Goodlett DR. Determination and comparison of the Francisella tularensis subsp.novicida U112 proteome to other bacterial proteomes. Journal of Proteome Research. 7: 2016-24. PMID 18380474 DOI: 10.1021/pr700760z  0.96
2008 Kanistanon D, Hajjar AM, Pelletier MR, Gallagher LA, Kalhorn T, Shaffer SA, Goodlett DR, Rohmer L, Brittnacher MJ, Skerrett SJ, Ernst RK. A Francisella mutant in lipid A carbohydrate modification elicits protective immunity. Plos Pathogens. 4: e24. PMID 18266468 DOI: 10.1371/journal.ppat.0040024  0.96
2008 Scherl A, Shaffer SA, Taylor GK, Kulasekara HD, Miller SI, Goodlett DR. Genome-specific gas-phase fractionation strategy for improved shotgun proteomic profiling of proteotypic peptides. Analytical Chemistry. 80: 1182-91. PMID 18211032 DOI: 10.1021/ac701680f  0.96
2007 Foss EJ, Radulovic D, Shaffer SA, Ruderfer DM, Bedalov A, Goodlett DR, Kruglyak L. Genetic basis of proteome variation in yeast. Nature Genetics. 39: 1369-75. PMID 17952072 DOI: 10.1038/ng.2007.22  0.96
2007 Prakash A, Piening B, Whiteaker J, Zhang H, Shaffer SA, Martin D, Hohmann L, Cooke K, Olson JM, Hansen S, Flory MR, Lee H, Watts J, Goodlett DR, Aebersold R, et al. Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics. Molecular & Cellular Proteomics : McP. 6: 1741-8. PMID 17617667 DOI: 10.1074/mcp.M600470-MCP200  0.96
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