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Scott A Shaffer PhD

TitleProfessor Emeritus
InstitutionUMass Chan Medical School
DepartmentBiochemistry and Molecular Biotechnology
AddressUMass Chan Medical School
222 Maple Avenue
Shrewsbury MA 01545
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    Other Positions
    InstitutionT.H. Chan School of Medicine
    DepartmentBiochemistry and Molecular Biotechnology

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentBiochemistry and Molecular Biotechnology

    InstitutionUMass Chan Programs, Centers and Institutes
    DepartmentBioinformatics and Integrative Biology


    Collapse Biography 
    Collapse education and training
    Northern Arizona University, Flagstaff, AZ, United StatesB SChemistry
    University of Washington, Seattle, WA, United StatesPHDAnalytical Chemistry

    Collapse Overview 

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Nanaware PP, Calvo-Calle JM, Redick SD, Tarpley MW, Cruz J, Clement CC, Manganaro A, Velarde de la Cruz EE, Muneeruddin K, Faulkner M, Wang JP, Shaffer SA, Harlan DM, Santambrogio L, Kent SC, Stern LJ. The antigen presentation landscape of cytokine-stressed human pancreatic islets. Cell Rep. 2025 Aug 26; 44(8):115927. PMID: 40684438.
      Citations:    
    2. Ikezu T, Bodart-Santos V, Ravula AR, You Y, Abdullah M, Ruan Z, Ellison J, Radhakishun S, Ray NB, Melvin B, Kurti A, Liang Z, Sakai Y, O'Brien D, Nguyen S, Shaffer S, Fiddes L, Butovsky O, Springer W, Ikezu S. P2RX7 regulates tauopathy progression via tau and mitochondria loading in extracellular vesicles. Res Sq. 2025 Jun 23. PMID: 40678243.
      Citations:    
    3. Sequeira AMM, Rodr?guez JP, Marley SA, Calich HJ, van der Mheen M, VanCompernolle M, Arrowsmith LM, Peel LR, Queiroz N, Vedor M, da Costa I, Mucientes G, Couto A, Humphries NE, Abalo-Morla S, Abascal FJ, Abercrombie DL, Abrantes K, Abreu-Grobois FA, Afonso AS, Afonso P, Ahonen H, ?kesson S, Alfaro-Shigueto J, Andrews RD, Angelier F, Antonopoulou M, Arata JA, Araujo G, Arauz R, Arcos JM, Arregui I, Arrizabalaga H, Auger-M?th? M, Bach S, Bailleul F, Baird RW, Balazs GH, Barco SG, Barnett A, Baverstock W, Baylis AMM, Beard A, B?cares J, Belda EJ, Bell I, Bennison A, Benson SR, Bernal D, Berumen ML, Bessudo S, Bezerra NPA, Blaison AV, Blanco GS, Block BA, Bolton M, Bond ME, Bonfil R, Braun CD, Broderick AC, Brooke ML, Brooks AML, Brooks EJ, Bruno IM, Burns JM, Byrne ME, Campana SE, Campbell HA, Campbell RA, Carlisle A, Carmichael RH, Carroll G, Casale P, Ceia FR, Chapman DD, Chapple TK, Charrassin JB, Chiaradia A, Chisholm J, Clarke CR, Clay TA, Cleguer C, Clingham E, Clua EEG, Cochran JEM, Constantine R, Cooper RW, Crochelet E, Cronin M, Cuevas E, DaCosta KP, Dagorn L, Daly R, Davis RW, de Bruyn PJN, Delgado-Trejo C, Dellinger T, Derville S, Diamant S, DiMatteo A, Dodge KL, Doherty PD, Double MC, Dove ADM, Doyle TK, Drew MJ, Dubbs LL, Duffy CAJ, Dutton PH, Edwards EWJ, Einoder LD, Erdmann MV, Espinoza E, Esteban N, Fagundes AI, Feare C, Ferguson SH, Ferreira LC, Ferretti F, Filmalter J, Finucci B, Fischer GC, Fitzpatrick RJ, Fontes J, Formia A, Fossette S, Francis MP, Friedlaender AS, Furtado M, Gallagher AJ, Garrigue C, Gennari E, Gilchrist HG, Godley BJ, Goldsworthy SD, Gollock M, Carman VG, Grecian WJ, Green JR, Guinet C, Gustafson J, Guttridge TL, Guzman HM, Hamer D, Hamer KC, Hammerschlag N, Hammill MO, Harman L, Harrison E, Hart CE, Harris AE, Hastie G, Hazin FHV, Heard M, Hearn AR, Heide-J?rgensen MP, Henry L, Henry RW, Hernandez VG, Herrera AE, Hindell MA, Holdsworth JC, Holmes BJ, Howey LA, Hoyos Padilla EM, Huckstadt LA, Hueter RE, Lara PH, Hussey NE, Huveneers C, Hyland K, Irion DT, Jacoby DMP, Jaeger A, Jaidah MY, Jessopp M, Jewell OJD, Johnson R, Jones CG, Jonsen ID, Jordan LKB, Jorgensen SJ, Kato A, Ketchum JT, Kitaysky AS, Klimley AP, Kock AA, Koen P, Archila FL, Lana FO, Lane JV, Le Corre M, Lea MA, Lea J, Leat EHK, Lee OA, Levenson JJ, Ley-Qui?onez CP, Llewellyn F, Lockhart G, Lopez GG, Mendilaharsu ML, Lowther AD, Luschi P, Lutcavage ME, Lyon WS, Macena BCL, Mackay AI, Madden CA, Mallory ML, Mangel JC, Manning M, Mansfield KL, March D, Marco A, Marcoux M, Acu?a-Marrero D, Marsh H, Marshall H, Mate B, McAllister JD, McGuire RL, McKenzie J, McLeay L, McMahon CR, Modest M, Morris J, Muelbert MMC, Namboothri N, Nichols WJ, Nicoll MAC, Norman BM, Norris K, Olsen E, Oppel S, Orlowski S, Pagano AM, Page B, Paiva VH, Palacios DM, Papastamatiou YP, Parker DM, Pattiaratchi C, Peckham H, Pe?aherrera-Palma CR, Pepperell JG, Phillips RA, Pierce SJ, Pikesley SK, Pilcher NJ, Pinet P, Pinkerton M, Pirotta E, Plot V, Powell AN, Powers KD, Prebble CEM, Preston TJ, Prieto R, Prosdocimi L, Quinn JL, Quintero LM, Raclot T, Ramirez I, Ram?rez-Mac?as D, Ramos JA, Read AJ, Ream R, Rees AF, Reina RD, Reisinger RR, Revuelta O, Reynolds SD, Richardson AJ, Riekkola L, Riet-Sapriza FG, Robinson DP, Robinson PW, Rocha CFD, Rogers TL, Rohner CA, Ropert-Coudert Y, Ross M, Rowat DRL, Ruhomaun K, Sagar PM, Samoilys MA, Sanchez S, Sandoval-Lugo AG, Dos Santos EAP, Santos AM, Scales KL, Schofield G, Semmens JM, Setyawan E, Shaffer SA, Shanker K, Sheaves M, Shillinger GL, Shivji MS, Sianipar A, Silk JRD, Silva MA, Sim J, Simpson SJ, Skomal G, Slip DJ, Smale MJ, Soler GA, Soria M, Sousa LL, Southall EJ, Stahl JC, Stehfest KM, Sterling JT, Stevens JD, Stevens GMW, Stewart JD, Swaminathan A, Takahashi A, Tatayah V, Thiebot JB, Thompson PM, Thorrold SR, Thums M, Tom?s J, Torres LG, Towner A, Trathan PN, Tyminski JP, Sagarminaga van Buiten R, Van Dam RP, Vandeperre F, Varo-Cruz N, Vaudo JJ, Vely M, Villegas-Amtmann S, Vincent C, Waayers D, et al. Global tracking of marine megafauna space use reveals how to achieve conservation targets. Science. 2025 Jun 05; 388(6751):1086-1097. PMID: 40472106.
      Citations:    
    4. Trotman JB, Porrello A, Schactler SA, DeLeon LE, Eberhard QE, Boyson SP, Zhang Z, Lee DM, Kirik SE, Sultana N, Nguyen SN, Beltejar MG, Shinn MK, Ong SE, Gonzalez-Perez MP, Shaffer SA, Dominguez D, Shechner DM, Calabrese JM. Xist Repeat A coordinates an assembly of SR proteins to recruit SPEN and induce gene silencing. bioRxiv. 2025 May 26. PMID: 40502125.
      Citations:    
    5. Gilmour ME, Pollock K, Adams J, Block BA, Caselle JE, Filous A, Friedlander AM, Game ET, Hazen EL, Hill M, Holmes ND, Lafferty KD, Maxwell SM, McCauley DJ, Schallert R, Shaffer SA, Wolff NH, Wegmann A. Multi-Species Telemetry Quantifies Current and Future Efficacy of a Remote Marine Protected Area. Glob Chang Biol. 2025 Apr; 31(4):e70138. PMID: 40231377.
      Citations:    
    6. Hare MM, Barber A, Shaffer SA, Deligiannidis KM. Bidirectional associations between perinatal allopregnanolone and depression severity with postpartum gray matter volume in adult women. Acta Psychiatr Scand. 2024 Nov; 150(5):404-415. PMID: 38923502.
      Citations:    
    7. Kearney PJ, Zhang Y, Liang M, Tan Y, Kahuno E, Conklin TL, Fagan RR, Pavchinskiy RG, Shaffer SA, Yue Z, Melikian HE. Silencing Parkinson's risk allele Rit2 sex-specifically compromises motor function and dopamine neuron viability. NPJ Parkinsons Dis. 2024 Feb 23; 10(1):41. PMID: 38395968.
      Citations:    
    8. You Y, Zhang Z, Sultana N, Ericsson M, Martens YA, Sun M, Kanekiyo T, Ikezu S, Shaffer SA, Ikezu T. ATP1A3 as a target for isolating neuron-specific extracellular vesicles from human brain and biofluids. Sci Adv. 2023 09 15; 9(37):eadi3647. PMID: 37713494.
      Citations: 2     Fields:    Translation:HumansCells
    9. Humphries F, Shmuel-Galia L, Jiang Z, Zhou JY, Barasa L, Mondal S, Wilson R, Sultana N, Shaffer SA, Ng SL, Pesiridis GS, Thompson PR, Fitzgerald KA. Targeting STING oligomerization with small-molecule inhibitors. Proc Natl Acad Sci U S A. 2023 08 15; 120(33):e2305420120. PMID: 37549268.
      Citations: 1     Fields:    Translation:AnimalsCells
    10. Becerra-Artiles A, Nanaware PP, Muneeruddin K, Weaver GC, Shaffer SA, Calvo-Calle JM, Stern LJ. Immunopeptidome profiling of human coronavirus OC43-infected cells identifies CD4 T-cell epitopes specific to seasonal coronaviruses or cross-reactive with SARS-CoV-2. PLoS Pathog. 2023 07; 19(7):e1011032. PMID: 37498934.
      Citations: 2     Fields:    Translation:HumansCells
    11. Phoomak C, Rinis N, Baro M, Shrimal S, Bennett D, Shaffer SA, Lehrman M, Gilmore R, Contessa JN. Signal recognition particle receptor-? (SR-?) coordinates cotranslational N-glycosylation. Sci Adv. 2023 03 17; 9(11):eade8079. PMID: 36921042.
      Citations:    Fields:    Translation:Cells
    12. Mondal S, Chen Y, Lockbaum GJ, Sen S, Chaudhuri S, Reyes AC, Lee JM, Kaur AN, Sultana N, Cameron MD, Shaffer SA, Schiffer CA, Fitzgerald KA, Thompson PR. Dual Inhibitors of Main Protease (MPro) and Cathepsin L as Potent Antivirals against SARS-CoV2. J Am Chem Soc. 2022 11 23; 144(46):21035-21045. PMID: 36356199.
      Citations: 9     Fields:    Translation:HumansAnimalsCells
    13. Prokaeva T, Klimtchuk ES, Feschenko P, Spencer B, Cui H, Burks EJ, Aslebagh R, Muneeruddin K, Shaffer SA, Varghese E, Berk JL, Connors LH. An additive destabilising effect of compound T60I and V122I substitutions in ATTRv amyloidosis. Amyloid. 2023 Jun; 30(2):141-152. PMID: 36286264.
      Citations:    Fields:    Translation:Humans
    14. You Y, Hersh SW, Aslebagh R, Shaffer SA, Ikezu S, Mez J, Lunetta KL, Logue MW, Farrer LA, Ikezu T. Alzheimer's disease associated AKAP9 I2558M mutation alters posttranslational modification and interactome of tau and cellular functions in CRISPR-edited human neuronal cells. Aging Cell. 2022 06; 21(6):e13617. PMID: 35567427.
      Citations: 3     Fields:    Translation:HumansCells
    15. Koh EI, Oluoch PO, Ruecker N, Proulx MK, Soni V, Murphy KC, Papavinasasundaram K, Reames CJ, Trujillo C, Zaveri A, Zimmerman MD, Aslebagh R, Baker RE, Shaffer SA, Guinn KM, Fitzgerald M, Dartois V, Ehrt S, Hung DT, Ioerger TR, Rubin EJ, Rhee KY, Schnappinger D, Sassetti CM. Chemical-genetic interaction mapping links carbon metabolism and cell wall structure to tuberculosis drug efficacy. Proc Natl Acad Sci U S A. 2022 04 12; 119(15):e2201632119. PMID: 35380903.
      Citations: 10     Fields:    Translation:HumansCells
    16. Wang J, Zhang Y, Mendonca CA, Yukselen O, Muneeruddin K, Ren L, Liang J, Zhou C, Xie J, Li J, Jiang Z, Kucukural A, Shaffer SA, Gao G, Wang D. AAV-delivered suppressor tRNA overcomes a nonsense mutation in mice. Nature. 2022 04; 604(7905):343-348. PMID: 35322228.
      Citations: 25     Fields:    Translation:HumansAnimalsCells
    17. Smith TC, Vasilakos G, Shaffer SA, Puglise JM, Chou CH, Barton ER, Luna EJ. Novel ?-sarcoglycan interactors in murine muscle membranes. Skelet Muscle. 2022 01 22; 12(1):2. PMID: 35065666.
      Citations: 1     Fields:    Translation:HumansAnimals
    18. You Y, Muraoka S, Jedrychowski MP, Hu J, McQuade AK, Young-Pearse T, Aslebagh R, Shaffer SA, Gygi SP, Blurton-Jones M, Poon WW, Ikezu T. Human neural cell type-specific?extracellular vesicle proteome defines disease-related molecules associated with activated astrocytes in Alzheimer's disease brain. J Extracell Vesicles. 2022 01; 11(1):e12183. PMID: 35029059.
      Citations: 29     Fields:    Translation:HumansCells
    19. Sen S, Sultana N, Shaffer SA, Thompson PR. Proximity-Dependent Labeling of Cysteines. J Am Chem Soc. 2021 11 24; 143(46):19257-19261. PMID: 34762412.
      Citations: 1     Fields:    Translation:HumansCells
    20. Maurais AJ, Salinger AJ, Tobin M, Shaffer SA, Weerapana E, Thompson PR. A Streamlined Data Analysis Pipeline for the Identification of Sites of Citrullination. Biochemistry. 2021 09 28; 60(38):2902-2914. PMID: 34491035.
      Citations: 5     Fields:    Translation:HumansCells
    21. Kuang B, Dhara VG, Hoang D, Jenkins J, Ladiwala P, Tan Y, Shaffer SA, Galbraith SC, Betenbaugh MJ, Yoon S. Identification of novel inhibitory metabolites and impact verification on growth and protein synthesis in mammalian cells. Metab Eng Commun. 2021 Dec; 13:e00182. PMID: 34522610.
      Citations:    
    22. Shmuel-Galia L, Humphries F, Lei X, Ceglia S, Wilson R, Jiang Z, Ketelut-Carneiro N, Foley SE, Pechhold S, Houghton J, Muneeruddin K, Shaffer SA, McCormick BA, Reboldi A, Ward D, Marshak-Rothstein A, Fitzgerald KA. Dysbiosis exacerbates colitis by promoting ubiquitination and accumulation of the innate immune adaptor STING in myeloid cells. Immunity. 2021 06 08; 54(6):1137-1153.e8. PMID: 34051146.
      Citations: 24     Fields:    Translation:HumansAnimalsCells
    23. Jain R, Muneeruddin K, Anderson J, Harms MJ, Shaffer SA, Matthews CR. A conserved folding nucleus sculpts the free energy landscape of bacterial and archaeal orthologs from a divergent TIM barrel family. Proc Natl Acad Sci U S A. 2021 04 27; 118(17). PMID: 33875592.
      Citations: 4     Fields:    Translation:Cells
    24. Hutchison L, Clark M, Shaffer S. Insidious Onset of Serotonin Syndrome in a 6-Year-Old Boy. J Am Acad Child Adolesc Psychiatry. 2021 02; 60(2):201-202. PMID: 32949713.
      Citations:    
    25. Angheloiu AA, Tan Y, Ruse C, Shaffer SA, Angheloiu GO. In-Vitro Sorbent-Mediated Removal of Edoxaban from Human Plasma and Albumin Solution. Drugs R D. 2020 Sep; 20(3):217-223. PMID: 32415538.
      Citations: 4     Fields:    Translation:HumansCells
    26. Humphries F, Shmuel-Galia L, Ketelut-Carneiro N, Li S, Wang B, Nemmara VV, Wilson R, Jiang Z, Khalighinejad F, Muneeruddin K, Shaffer SA, Dutta R, Ionete C, Pesiridis S, Yang S, Thompson PR, Fitzgerald KA. Succination inactivates gasdermin D and blocks pyroptosis. Science. 2020 09 25; 369(6511):1633-1637. PMID: 32820063.
      Citations: 198     Fields:    Translation:HumansAnimalsCells
    27. Deligiannidis KM, Kroll-Desrosiers AR, Tan Y, Dubuke ML, Shaffer SA. Longitudinal proneuroactive and neuroactive steroid profiles in medication-free women with, without and at-risk for perinatal depression: A liquid chromatography-tandem mass spectrometry analysis. Psychoneuroendocrinology. 2020 11; 121:104827. PMID: 32828068.
      Citations: 10     Fields:    Translation:Humans
    28. Cherepanova NA, Venev SV, Leszyk JD, Shaffer SA, Gilmore R. Quantitative glycoproteomics reveals new classes of STT3A- and STT3B-dependent N-glycosylation sites. J Cell Biol. 2019 08 05; 218(8):2782-2796. PMID: 31296534.
      Citations: 30     Fields:    Translation:HumansCells
    29. Baron DM, Matheny T, Lin YC, Leszyk JD, Kenna K, Gall KV, Santos DP, Tischbein M, Funes S, Hayward LJ, Kiskinis E, Landers JE, Parker R, Shaffer SA, Bosco DA. Quantitative proteomics identifies proteins that resist translational repression and become dysregulated in ALS-FUS. Hum Mol Genet. 2019 07 01; 28(13):2143-2160. PMID: 30806671.
      Citations: 8     Fields:    Translation:HumansAnimalsCells
    30. Haraszti RA, Miller R, Dubuke ML, Rockwell HE, Coles AH, Sapp E, Didiot MC, Echeverria D, Stoppato M, Sere YY, Leszyk J, Alterman JF, Godinho BMDC, Hassler MR, McDaniel J, Narain NR, Wollacott R, Wang Y, Shaffer SA, Kiebish MA, DiFiglia M, Aronin N, Khvorova A. Serum Deprivation of Mesenchymal Stem Cells Improves Exosome Activity and Alters Lipid and Protein Composition. iScience. 2019 Jun 28; 16:230-241. PMID: 31195240.
      Citations:    
    31. Becerra-Artiles A, Cruz J, Leszyk JD, Sidney J, Sette A, Shaffer SA, Stern LJ. Naturally processed HLA-DR3-restricted HHV-6B peptides are recognized broadly with polyfunctional and cytotoxic CD4 T-cell responses. Eur J Immunol. 2019 08; 49(8):1167-1185. PMID: 31020640.
      Citations: 14     Fields:    Translation:HumansCells
    32. Nanaware PP, Jurewicz MM, Leszyk JD, Shaffer SA, Stern LJ. HLA-DO Modulates the Diversity of the MHC-II Self-peptidome. Mol Cell Proteomics. 2019 03; 18(3):490-503. PMID: 30573663.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    33. Tian S, Muneeruddin K, Choi MY, Tao L, Bhuiyan RH, Ohmi Y, Furukawa K, Furukawa K, Boland S, Shaffer SA, Adam RM, Dong M. Genome-wide CRISPR screens for Shiga toxins and ricin reveal Golgi proteins critical for glycosylation. PLoS Biol. 2018 11; 16(11):e2006951. PMID: 30481169.
      Citations: 38     Fields:    Translation:HumansCells
    34. Deligiannidis KM, Fales CL, Kroll-Desrosiers AR, Shaffer SA, Villamarin V, Tan Y, Hall JE, Frederick BB, Sikoglu EM, Edden RA, Rothschild AJ, Moore CM. Resting-state functional connectivity, cortical GABA, and neuroactive steroids in peripartum and peripartum depressed women: a functional magnetic resonance?imaging and spectroscopy?study. Neuropsychopharmacology. 2019 02; 44(3):546-554. PMID: 30327498.
      Citations: 32     Fields:    Translation:Humans
    35. Rittershaus ESC, Baek SH, Krieger IV, Nelson SJ, Cheng YS, Nambi S, Baker RE, Leszyk JD, Shaffer SA, Sacchettini JC, Sassetti CM. A Lysine Acetyltransferase Contributes to the Metabolic Adaptation to Hypoxia in Mycobacterium tuberculosis. Cell Chem Biol. 2018 12 20; 25(12):1495-1505.e3. PMID: 30318462.
      Citations: 16     Fields:    Translation:HumansAnimalsCells
    36. Haraszti RA, Miller R, Stoppato M, Sere YY, Coles A, Didiot MC, Wollacott R, Sapp E, Dubuke ML, Li X, Shaffer SA, DiFiglia M, Wang Y, Aronin N, Khvorova A. Exosomes Produced from 3D Cultures of MSCs by Tangential Flow Filtration Show Higher Yield and Improved Activity. Mol Ther. 2018 12 05; 26(12):2838-2847. PMID: 30341012.
      Citations: 161     Fields:    Translation:AnimalsCells
    37. Gao XD, Tu LC, Mir A, Rodriguez T, Ding Y, Leszyk J, Dekker J, Shaffer SA, Zhu LJ, Wolfe SA, Sontheimer EJ. C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2. Nat Methods. 2018 06; 15(6):433-436. PMID: 29735996.
      Citations: 60     Fields:    Translation:HumansCells
    38. Saha B, Momen-Heravi F, Furi I, Kodys K, Catalano D, Gangopadhyay A, Haraszti R, Satishchandran A, Iracheta-Vellve A, Adejumo A, Shaffer SA, Szabo G. Extracellular vesicles from mice with alcoholic liver disease carry a distinct protein cargo and induce macrophage activation through heat shock protein 90. Hepatology. 2018 05; 67(5):1986-2000. PMID: 29251792.
      Citations: 66     Fields:    Translation:AnimalsCells
    39. Dorrel B, Long T, Shaffer S, Myer GD. The Functional Movement Screen as a Predictor of Injury in National Collegiate Athletic Association Division II Athletes. J Athl Train. 2018 Jan; 53(1):29-34. PMID: 29251533.
      Citations:    
    40. Gallego-Marin C, Schrum JE, Andrade WA, Shaffer SA, Giraldo LF, Lasso AM, Kurt-Jones EA, Fitzgerald KA, Golenbock DT. Cyclic GMP-AMP Synthase Is the Cytosolic Sensor of Plasmodium falciparum Genomic DNA and Activates Type I IFN in Malaria. J Immunol. 2018 01 15; 200(2):768-774. PMID: 29212905.
      Citations: 31     Fields:    Translation:HumansAnimalsCells
    41. Pacheco NL, Heaven MR, Holt LM, Crossman DK, Boggio KJ, Shaffer SA, Flint DL, Olsen ML. RNA sequencing and proteomics approaches reveal novel deficits in the cortex of Mecp2-deficient mice, a model for Rett syndrome. Mol Autism. 2017; 8:56. PMID: 29090078.
      Citations: 44     Fields:    Translation:AnimalsCells
    42. Thompson MF, Poirier GL, D?vila-Garc?a MI, Huang W, Tam K, Robidoux M, Dubuke ML, Shaffer SA, Colon-Perez L, Febo M, DiFranza JR, King JA. Menthol enhances nicotine-induced locomotor sensitization and in vivo functional connectivity in adolescence. J Psychopharmacol. 2018 03; 32(3):332-343. PMID: 28747086.
      Citations: 11     Fields:    Translation:HumansAnimals
    43. Mishra BB, Lovewell RR, Olive AJ, Zhang G, Wang W, Eugenin E, Smith CM, Phuah JY, Long JE, Dubuke ML, Palace SG, Goguen JD, Baker RE, Nambi S, Mishra R, Booty MG, Baer CE, Shaffer SA, Dartois V, McCormick BA, Chen X, Sassetti CM. Nitric oxide prevents a pathogen-permissive granulocytic inflammation during tuberculosis. Nat Microbiol. 2017 May 15; 2:17072. PMID: 28504669.
      Citations: 130     Fields:    Translation:HumansAnimalsCells
    44. Chen L, Paquette N, Mamoor S, Rus F, Nandy A, Leszyk J, Shaffer SA, Silverman N. Innate immune signaling in Drosophila is regulated by transforming growth factor ? (TGF?)-activated kinase (Tak1)-triggered ubiquitin editing. J Biol Chem. 2017 05 26; 292(21):8738-8749. PMID: 28377500.
      Citations: 15     Fields:    Translation:AnimalsCells
    45. Shin A, Shin B, Shin JW, Kim KH, Atwal RS, Hope JM, Gillis T, Leszyk JD, Shaffer SA, Lee R, Kwak S, MacDonald ME, Gusella JF, Seong IS, Lee JM. Novel allele-specific quantification methods reveal no effects of adult onset CAG repeats on HTT mRNA and protein levels. Hum Mol Genet. 2017 04 01; 26(7):1258-1267. PMID: 28165127.
      Citations: 8     Fields:    Translation:HumansCells
    46. Haraszti RA, Didiot MC, Sapp E, Leszyk J, Shaffer SA, Rockwell HE, Gao F, Narain NR, DiFiglia M, Kiebish MA, Aronin N, Khvorova A. High-resolution proteomic and lipidomic analysis of exosomes and microvesicles from different cell sources. J Extracell Vesicles. 2016; 5:32570. PMID: 27863537.
      Citations: 297     Fields:    
    47. Ortiz-Miranda S, Ji R, Jurczyk A, Aryee KE, Mo S, Fletcher T, Shaffer SA, Greiner DL, Bortell R, Gregg RG, Cheng A, Hennings LJ, Rittenhouse AR. A novel transgenic mouse model of lysosomal storage disorder. Am J Physiol Gastrointest Liver Physiol. 2016 11 01; 311(5):G903-G919. PMID: 27659423.
      Citations: 2     Fields:    Translation:AnimalsCells
    48. 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 Neisseria gonorrhoeae: Dual Requirement of Cyclic GMP-AMP Synthase and Toll-like Receptor 4. Cell Rep. 2016 06 14; 15(11):2438-48. PMID: 27264171.
      Citations: 38     Fields:    Translation:HumansCells
    49. 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 ?-aminobutyric acid profiles in women at-risk for postpartum depression. Psychoneuroendocrinology. 2016 08; 70:98-107. PMID: 27209438.
      Citations: 39     Fields:    Translation:Humans
    50. 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, Kinoshita T, Moody DB, Morita YS. Spatially distinct and metabolically active membrane domain in mycobacteria. Proc Natl Acad Sci U S A. 2016 May 10; 113(19):5400-5. PMID: 27114527.
      Citations: 37     Fields:    Translation:Cells
    51. Clement CC, Becerra A, Yin L, Zolla V, Huang L, Merlin S, Follenzi A, Shaffer SA, Stern LJ, Santambrogio L. The Dendritic Cell Major Histocompatibility Complex II (MHC II) Peptidome Derives from a Variety of Processing Pathways and Includes Peptides with a Broad Spectrum of HLA-DM Sensitivity. J Biol Chem. 2016 Mar 11; 291(11):5576-5595. PMID: 26740625.
      Citations: 32     Fields:    Translation:HumansAnimalsCells
    52. 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 Clin Appl. 2016 Feb; 10(2):136-43. PMID: 26220577.
      Citations: 7     Fields:    Translation:HumansCells
    53. Cantres-Rosario YM, Hernandez N, Negron K, Perez-Laspiur J, Leszyk J, Shaffer SA, Mel?ndez LM. Interacting partners of macrophage-secreted cathepsin B contribute to HIV-induced neuronal apoptosis. AIDS. 2015 Oct 23; 29(16):2081-92. PMID: 26208400.
      Citations: 10     Fields:    Translation:HumansCells
    54. Dubuke ML, Maniatis S, Shaffer SA, Munson M. The Exocyst Subunit Sec6 Interacts with Assembled Exocytic SNARE Complexes. J Biol Chem. 2015 Nov 20; 290(47):28245-28256. PMID: 26446795.
      Citations: 26     Fields:    Translation:AnimalsCells
    55. Dorrel BS, Long T, Shaffer S, Myer GD. Evaluation of the Functional Movement Screen as an Injury Prediction Tool Among Active Adult Populations: A Systematic Review and Meta-analysis. Sports Health. 2015 Nov-Dec; 7(6):532-7. PMID: 26502447.
      Citations:    
    56. 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. Nat Commun. 2015 Jun 17; 6:7441. PMID: 26081415.
      Citations: 20     Fields:    Translation:AnimalsCells
    57. 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. 2015 Jun 10; 17(6):829-37. PMID: 26067605.
      Citations: 67     Fields:    Translation:AnimalsCells
    58. Weismann CM, Ferreira J, Keeler AM, Su Q, Qui L, Shaffer SA, Xu Z, Gao G, Sena-Esteves M. Systemic AAV9 gene transfer in adult GM1 gangliosidosis mice reduces lysosomal storage in CNS and extends lifespan. Hum Mol Genet. 2015 Aug 01; 24(15):4353-64. PMID: 25964428.
      Citations: 46     Fields:    Translation:HumansAnimalsCells
    59. 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. J Cell Sci. 2015 Feb 15; 128(4):728-40. PMID: 25609707.
      Citations: 12     Fields:    Translation:HumansCells
    60. 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. J Huntingtons Dis. 2015; 4(2):187-201. PMID: 26397899.
      Citations: 10     Fields:    Translation:AnimalsCells
    61. Ward CL, Boggio KJ, Johnson BN, Boyd JB, Douthwright S, Shaffer SA, Landers JE, Glicksman MA, Bosco DA. A loss of FUS/TLS function leads to impaired cellular proliferation. Cell Death Dis. 2014 Dec 11; 5:e1572. PMID: 25501833.
      Citations: 27     Fields:    Translation:HumansCells
    62. Canterbury JD, Merrihew GE, MacCoss MJ, Goodlett DR, Shaffer SA. Comparison of data acquisition strategies on quadrupole ion trap instrumentation for shotgun proteomics. J Am Soc Mass Spectrom. 2014 Dec; 25(12):2048-59. PMID: 25261218.
      Citations: 14     Fields:    Translation:Animals
    63. 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. J Biol Chem. 2014 Oct 10; 289(41):28527-38. PMID: 25164820.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    64. 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 ?-dystroglycan and identifies a potential novel therapeutic target for skeletal muscle wasting. Hum Mol Genet. 2014 Dec 20; 23(25):6697-711. PMID: 25082828.
      Citations: 8     Fields:    Translation:HumansAnimalsCells
    65. 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. Invest Ophthalmol Vis Sci. 2014 May 27; 55(6):3866-77. PMID: 24867579.
      Citations: 29     Fields:    Translation:HumansCells
    66. 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. J Hepatol. 2014 Oct; 61(4):903-11. PMID: 24859453.
      Citations: 39     Fields:    Translation:HumansAnimalsCells
    67. Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HE, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT. Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers. J Proteome Res. 2013 Oct 04; 12(10):4351-65. PMID: 24004147.
      Citations: 20     Fields:    Translation:Humans
    68. 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. J Psychiatr Res. 2013 Jun; 47(6):816-28. PMID: 23499388.
      Citations: 64     Fields:    Translation:Humans
    69. 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. 2013 Mar; 13(6):904-9. PMID: 23319436.
      Citations: 9     Fields:    Translation:HumansCells
    70. 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. J Huntingtons Dis. 2013; 2(4):459-75. PMID: 24696705.
      Citations: 19     Fields:    Translation:AnimalsCells
    71. 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. 2012 Nov 27; 51(47):9488-500. PMID: 23150942.
      Citations: 23     Fields:    Translation:Cells
    72. Singh G, Kucukural A, Cenik C, Leszyk JD, Shaffer SA, Weng Z, Moore MJ. The Cellular EJC Interactome Reveals Higher-Order mRNP Structure and an EJC-SR Protein Nexus. Cell. 2012 11 09; 151(4):915-916. PMID: 30360293.
      Citations: 11     Fields:    
    73. 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. Nat Immunol. 2012 Oct; 13(10):1010-9. PMID: 22922362.
      Citations: 240     Fields:    Translation:HumansAnimalsCells
    74. 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 TGF?-activated kinase (TAK1) by Yersinia pestis YopJ inhibits innate immune signaling. Proc Natl Acad Sci U S A. 2012 Jul 31; 109(31):12710-5. PMID: 22802624.
      Citations: 95     Fields:    Translation:HumansAnimalsCells
    75. 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 Genet. 2012 Jul; 8(7):e1002786. PMID: 22792074.
      Citations: 28     Fields:    Translation:HumansCells
    76. 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. Proc Natl Acad Sci U S A. 2012 May 29; 109(22):8716-21. PMID: 22586119.
      Citations: 85     Fields:    Translation:AnimalsCells
    77. 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. Mol Ther. 2012 Jun; 20(6):1131-8. PMID: 22395529.
      Citations: 13     Fields:    Translation:AnimalsCells
    78. Foss EJ, Radulovic D, Shaffer SA, Goodlett DR, Kruglyak L, Bedalov A. Genetic variation shapes protein networks mainly through non-transcriptional mechanisms. PLoS Biol. 2011 Sep; 9(9):e1001144. PMID: 21909241.
      Citations: 57     Fields:    Translation:AnimalsCells
    79. 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. Mol Pharmacol. 2011 Aug; 80(2):228-39. PMID: 21521770.
      Citations: 28     Fields:    Translation:HumansAnimalsCells
    80. Ting YS, Shaffer SA, Jones JW, Ng WV, Ernst RK, Goodlett DR. Automated lipid A structure assignment from hierarchical tandem mass spectrometry data. J Am Soc Mass Spectrom. 2011 May; 22(5):856-66. PMID: 21472520.
      Citations: 16     Fields:    Translation:Cells
    81. Panchaud A, Jung S, Shaffer SA, Aitchison JD, Goodlett DR. Faster, quantitative, and accurate precursor acquisition independent from ion count. Anal Chem. 2011 Mar 15; 83(6):2250-7. PMID: 21341720.
      Citations: 29     Fields:    Translation:Animals
    82. 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. J Proteome Res. 2011 Mar 04; 10(3):1170-8. PMID: 21158390.
      Citations: 19     Fields:    Translation:Cells
    83. 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, Hook V, Bennett CL, Pallanck LJ, La Spada AR. Mitochondrial dysfunction in NnaD mutant flies and Purkinje cell degeneration mice reveals a role for Nna proteins in neuronal bioenergetics. Neuron. 2010 Jun 24; 66(6):835-47. PMID: 20620870.
      Citations: 28     Fields:    Translation:HumansAnimalsCells
    84. Heron SR, Wilson R, Shaffer SA, Goodlett DR, Cooper JM. Surface acoustic wave nebulization of peptides as a microfluidic interface for mass spectrometry. Anal Chem. 2010 May 15; 82(10):3985-9. PMID: 20364823.
      Citations: 35     Fields:    
    85. Panchaud A, Singh P, Shaffer SA, Goodlett DR. xComb: a cross-linked peptide database approach to protein-protein interaction analysis. J Proteome Res. 2010 May 07; 9(5):2508-15. PMID: 20302351.
      Citations: 30     Fields:    Translation:HumansCells
    86. Gharib SA, Nguyen E, Altemeier WA, Shaffer SA, Doneanu CE, Goodlett DR, Schnapp LM. Of mice and men: comparative proteomics of bronchoalveolar fluid. Eur Respir J. 2010 Jun; 35(6):1388-95. PMID: 20032019.
      Citations: 26     Fields:    Translation:HumansAnimals
    87. 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. Microbiol Res. 2010 Sep 20; 165(7):531-45. PMID: 20006480.
      Citations: 12     Fields:    Translation:HumansAnimalsCells
    88. Tsai YS, Scherl A, Shaw JL, MacKay CL, Shaffer SA, Langridge-Smith PR, Goodlett DR. Precursor ion independent algorithm for top-down shotgun proteomics. J Am Soc Mass Spectrom. 2009 Nov; 20(11):2154-66. PMID: 19773183.
      Citations: 21     Fields:    Translation:AnimalsCells
    89. 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. Anal Chem. 2009 Aug 01; 81(15):6481-8. PMID: 19572557.
      Citations: 85     Fields:    Translation:HumansCells
    90. Nunn BL, Aker JR, Shaffer SA, Tsai S, Strzepek RF, Boyd PW, Freeman TL, Brittnacher M, Malmstr?m L, Goodlett DR. Deciphering diatom biochemical pathways via whole-cell proteomics. Aquat Microb Ecol. 2009 Jun 03; 55(3):241-253. PMID: 19829762.
      Citations:    
    91. 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. Curr Proteomics. 2009 Apr 01; 6(1):63-69. PMID: 19829741.
      Citations:    
    92. Goo YA, Liu AY, Ryu S, Shaffer SA, Malmstr?m L, Page L, Nguyen LT, Doneanu CE, Goodlett DR. Identification of secreted glycoproteins of human prostate and bladder stromal cells by comparative quantitative proteomics. Prostate. 2009 Jan 01; 69(1):49-61. PMID: 18792917.
      Citations: 11     Fields:    Translation:HumansCells
    93. 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. J Neurochem. 2009 Feb; 108(4):891-908. PMID: 19077055.
      Citations: 28     Fields:    Translation:AnimalsCells
    94. Hengel SM, Shaffer SA, Nunn BL, Goodlett DR. Tandem mass spectrometry investigation of ADP-ribosylated kemptide. J Am Soc Mass Spectrom. 2009 Mar; 20(3):477-83. PMID: 19070509.
      Citations: 20     Fields:    
    95. 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. Anal Chem. 2008 Nov 15; 80(22):8799-806. PMID: 18947195.
      Citations: 44     Fields:    Translation:HumansCells
    96. 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. Proc Natl Acad Sci U S A. 2008 Sep 02; 105(35):12742-7. PMID: 18753624.
      Citations: 41     Fields:    Translation:Cells
    97. Scherl A, Tsai YS, Shaffer SA, Goodlett DR. Increasing information from shotgun proteomic data by accounting for misassigned precursor ion masses. Proteomics. 2008 Jul; 8(14):2791-7. PMID: 18655048.
      Citations: 17     Fields:    Translation:Cells
    98. 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 Inform. 2008; 6:243-55. PMID: 19259412.
      Citations:    
    99. 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. J Proteome Res. 2008 May; 7(5):2016-24. PMID: 18380474.
      Citations: 1     Fields:    Translation:Cells
    100. 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. J Am Soc Mass Spectrom. 2008 Jun; 19(6):891-901. PMID: 18417358.
      Citations: 24     Fields:    
    101. 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 Pathog. 2008 Feb 08; 4(2):e24. PMID: 18266468.
      Citations: 61     Fields:    Translation:AnimalsCells
    102. 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. Anal Chem. 2008 Feb 15; 80(4):1182-91. PMID: 18211032.
      Citations: 36     Fields:    
    103. 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. Eur J Mass Spectrom (Chichester). 2008; 14(5):275-80. PMID: 19023145.
      Citations: 4     Fields:    
    104. Foss EJ, Radulovic D, Shaffer SA, Ruderfer DM, Bedalov A, Goodlett DR, Kruglyak L. Genetic basis of proteome variation in yeast. Nat Genet. 2007 Nov; 39(11):1369-75. PMID: 17952072.
      Citations: 122     Fields:    Translation:AnimalsCells
    105. 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, Paulovich A, Schwikowski B. Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics. Mol Cell Proteomics. 2007 Oct; 6(10):1741-8. PMID: 17617667.
      Citations: 22     Fields:    Translation:HumansAnimalsCells
    106. Goo YA, Li Z, Pajkovic N, Shaffer S, Taylor G, Chen J, Campbell D, Arnstein L, Goodlett DR, van Breemen RB. Systematic investigation of lycopene effects in LNCaP cells by use of novel large-scale proteomic analysis software. Proteomics Clin Appl. 2007 May 01; 1(5):513-523. PMID: 20740054.
      Citations: 11     Fields:    
    107. Shaffer SA, Harvey MD, Goodlett DR, Ernst RK. Structural heterogeneity and environmentally regulated remodeling of Francisella tularensis subspecies novicida lipid A characterized by tandem mass spectrometry. J Am Soc Mass Spectrom. 2007 Jun; 18(6):1080-92. PMID: 17446084.
      Citations: 50     Fields:    Translation:Cells
    108. Rohmer L, Fong C, Abmayr S, Wasnick M, Larson Freeman TJ, Radey M, Guina T, Svensson K, Hayden HS, Jacobs M, Gallagher LA, Manoil C, Ernst RK, Drees B, Buckley D, Haugen E, Bovee D, Zhou Y, Chang J, Levy R, Lim R, Gillett W, Guenthener D, Kang A, Shaffer SA, Taylor G, Chen J, Gallis B, D'Argenio DA, Forsman M, Olson MV, Goodlett DR, Kaul R, Miller SI, Brittnacher MJ. Comparison of Francisella tularensis genomes reveals evolutionary events associated with the emergence of human pathogenic strains. Genome Biol. 2007; 8(6):R102. PMID: 17550600.
      Citations: 131     Fields:    Translation:HumansCells
    109. Trute M, Gallis B, Doneanu C, Shaffer S, Goodlett D, Gallagher E. Characterization of hepatic glutathione S-transferases in coho salmon (Oncorhynchus kisutch). Aquat Toxicol. 2007 Feb 28; 81(2):126-36. PMID: 17184855.
      Citations: 10     Fields:    Translation:AnimalsCells
    110. Hajjar AM, Harvey MD, Shaffer SA, Goodlett DR, Sj?stedt A, Edebro H, Forsman M, Bystr?m M, Pelletier M, Wilson CB, Miller SI, Skerrett SJ, Ernst RK. Lack of in vitro and in vivo recognition of Francisella tularensis subspecies lipopolysaccharide by Toll-like receptors. Infect Immun. 2006 Dec; 74(12):6730-8. PMID: 16982824.
      Citations: 107     Fields:    Translation:HumansAnimalsCells
    111. Shaffer SA, Baker-Lee C, Kennedy J, Lai MS, de Vries P, Buhler K, Singer JW. In vitro and in vivo metabolism of paclitaxel poliglumex: identification of metabolites and active proteases. Cancer Chemother Pharmacol. 2007 Mar; 59(4):537-48. PMID: 16924498.
      Citations: 31     Fields:    Translation:AnimalsCells
    112. Nunn BL, Shaffer SA, Scherl A, Gallis B, Wu M, Miller SI, Goodlett DR. Comparison of a Salmonella typhimurium proteome defined by shotgun proteomics directly on an LTQ-FT and by proteome pre-fractionation on an LCQ-DUO. Brief Funct Genomic Proteomic. 2006 Jun; 5(2):154-68. PMID: 16798750.
      Citations: 7     Fields:    Translation:Cells
    113. Gao Q, Doneanu CE, Shaffer SA, Adman ET, Goodlett DR, Nelson SD. Identification of the interactions between cytochrome P450 2E1 and cytochrome b5 by mass spectrometry and site-directed mutagenesis. J Biol Chem. 2006 Jul 21; 281(29):20404-17. PMID: 16679316.
      Citations: 27     Fields:    Translation:HumansCells
    114. Gao Q, Xue S, Doneanu CE, Shaffer SA, Goodlett DR, Nelson SD. Pro-CrossLink. Software tool for protein cross-linking and mass spectrometry. Anal Chem. 2006 Apr 01; 78(7):2145-9. PMID: 16579592.
      Citations: 29     Fields:    Translation:Cells
    115. Singer JW, Shaffer S, Baker B, Bernareggi A, Stromatt S, Nienstedt D, Besman M. Paclitaxel poliglumex (XYOTAX; CT-2103): an intracellularly targeted taxane. Anticancer Drugs. 2005 Mar; 16(3):243-54. PMID: 15711176.
      Citations: 25     Fields:    Translation:HumansAnimals
    116. Singer JW, Baker B, De Vries P, Kumar A, Shaffer S, Vawter E, Bolton M, Garzone P. Poly-(L)-glutamic acid-paclitaxel (CT-2103) [XYOTAX], a biodegradable polymeric drug conjugate: characterization, preclinical pharmacology, and preliminary clinical data. Adv Exp Med Biol. 2003; 519:81-99. PMID: 12675210.
      Citations: 27     Fields:    Translation:HumansAnimals
    117. Shaffer SA, Tolmachev A, Prior DC, Anderson GA, Udseth HR, Smith RD. Characterization of an improved electrodynamic ion funnel interface for electrospray ionization mass spectrometry. Anal Chem. 1999 Aug 01; 71(15):2957-64. PMID: 10450147.
      Citations: 37     Fields:    Translation:Animals
    118. Shaffer SA, Prior DC, Anderson GA, Udseth HR, Smith RD. An ion funnel interface for improved ion focusing and sensitivity using electrospray ionization mass spectrometry. Anal Chem. 1998 Oct 01; 70(19):4111-9. PMID: 9784749.
      Citations: 63     Fields:    Translation:AnimalsCells
    119. Shaffer SA, Tang K, Anderson GA, Prior DC, Udseth HR, Smith RD. A Novel Ion Funnel for Ion Focusing at Elevated Pressure Using Electrospray Ionization Mass Spectrometry. Rapid. Commun. Mass Spectrom. 1997; 11(16):1813-17.
    120. Shaffer SA, Wolken JK, Turecek F. Neutralization-Reionization of Alkenylammonium Cations. An Experimental and Ab Initio Study of Intramolecular N-H…C=C Interactions in Cations and Hypervalent Radicals. J Am Soc Mass Spectrom. 1997; 8(11):1111-23.
    121. Shaffer SA, Sadilek M, Turecek F, Hop CECA. Protonation of Isomeric Methoxyhexenes. Effects of Double Bond…H+…OCH3 Interaction. Int J Mass Spectrom. 1996; 160(1-3):137-55.
    122. Shaffer SA, Sadilek M, Turecek F. Hypervalent Ammonium Radicals. Effects of Alkyl Groups and Aromatic Substituents. J Org Chem. 1996; 61(16):5234-45.
    123. Shaffer SA, Turecek F. Hydrogen Bonding in Transient Bifunctional Hypervalent Radicals by Neutralization-Reionization Mass Spectrometry. J Am Soc Mass Spectrom. 1995; 6(11):1004-18.
    124. Nguyen VQ, Shaffer SA, Turecek F, Hop CECA. Franck-Condon Dominated Chemistry. Dissociations of Silicon-Centered Radicals Prepared by Femtosecond Reduction of Their Cations in the Gas Phase. J Phys Chem. 1995; 99(42):15454-64.
    125. Shaffer SA, Turecek F. Hydrogentrimethylammonium: A Marginally Stable Hypervalent Radical. J Am Chem Soc. 1994; 116(19):8647-53.
    126. Kuhns DW, Shaffer SA, Tran TB, Turecek F. The Methylthiomethyl Radical. A Variable-Time Neutralization-Reionization and Ab Initio Study. J Phys Chem. 1994; 98(18):4845-53.
    127. Shaffer SA, Cerny RL, Turecek F. The (Dimethylamino)methyl Radical. A Neutralization-Reionization and Ab Initio Study. J Am Chem Soc. 1993; 115(25):12117-24.
    128. Turecek F, Gu M, Shaffer SA. Novel tandem quadrupole-acceleration-deceleration mass spectrometer for neutralization-reionization studies. J Am Soc Mass Spectrom. 1992 Jul; 3(5):493-501. PMID: 24234492.
      Citations: 9     Fields:    
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