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Tropical seabirds sample broadscale patterns of marine contaminants.

Gilmour ME, Hudson SAT, Lamborg C, Fleishman AB, Young HS, Shaffer SA.

Sci Total Environ. 2019 Jul 12;691:631-643. doi: 10.1016/j.scitotenv.2019.07.147. [Epub ahead of print]


Quantitative glycoproteomics reveals new classes of STT3A- and STT3B-dependent N-glycosylation sites.

Cherepanova NA, Venev SV, Leszyk JD, Shaffer SA, Gilmore R.

J Cell Biol. 2019 Jul 11. pii: jcb.201904004. doi: 10.1083/jcb.201904004. [Epub ahead of print]


Serum Deprivation of Mesenchymal Stem Cells Improves Exosome Activity and Alters Lipid and Protein Composition.

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.

iScience. 2019 Jun 28;16:230-241. doi: 10.1016/j.isci.2019.05.029. Epub 2019 May 27.


Naturally processed HLA-DR3-restricted HHV-6B peptides are recognized broadly with polyfunctional and cytotoxic CD4 T-cell responses.

Becerra-Artiles A, Cruz J, Leszyk JD, Sidney J, Sette A, Shaffer SA, Stern LJ.

Eur J Immunol. 2019 Apr 25. doi: 10.1002/eji.201948126. [Epub ahead of print]


Microbial Ecology of the Western Gull (Larus occidentalis).

Cockerham S, Lee B, Orben RA, Suryan RM, Torres LG, Warzybok P, Bradley R, Jahncke J, Young HS, Ouverney C, Shaffer SA.

Microb Ecol. 2019 Mar 20. doi: 10.1007/s00248-019-01352-4. [Epub ahead of print]


Quantitative proteomics identifies proteins that resist translational repression and become dysregulated in ALS-FUS.

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.

Hum Mol Genet. 2019 Jul 1;28(13):2143-2160. doi: 10.1093/hmg/ddz048.


Variation in Corticosterone Levels in Two Species of Breeding Albatrosses with Divergent Life Histories: Responses to Body Condition and Drivers of Foraging Behavior.

Kroeger C, Crocker DE, Thompson DR, Torres LG, Sagar P, Shaffer SA.

Physiol Biochem Zool. 2019 Mar/Apr;92(2):223-238. doi: 10.1086/702656.


HLA-DO Modulates the Diversity of the MHC-II Self-peptidome.

Nanaware PP, Jurewicz MM, Leszyk JD, Shaffer SA, Stern LJ.

Mol Cell Proteomics. 2019 Mar;18(3):490-503. doi: 10.1074/mcp.RA118.000956. Epub 2018 Dec 20.


Genome-wide CRISPR screens for Shiga toxins and ricin reveal Golgi proteins critical for glycosylation.

Tian S, Muneeruddin K, Choi MY, Tao L, Bhuiyan RH, Ohmi Y, Furukawa K, Furukawa K, Boland S, Shaffer SA, Adam RM, Dong M.

PLoS Biol. 2018 Nov 27;16(11):e2006951. doi: 10.1371/journal.pbio.2006951. eCollection 2018 Nov.


Exosomes Produced from 3D Cultures of MSCs by Tangential Flow Filtration Show Higher Yield and Improved Activity.

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.

Mol Ther. 2018 Dec 5;26(12):2838-2847. doi: 10.1016/j.ymthe.2018.09.015. Epub 2018 Sep 22.


Resting-state functional connectivity, cortical GABA, and neuroactive steroids in peripartum and peripartum depressed women: a functional magnetic resonance imaging and spectroscopy study.

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.

Neuropsychopharmacology. 2019 Feb;44(3):546-554. doi: 10.1038/s41386-018-0242-2. Epub 2018 Oct 17.


A Lysine Acetyltransferase Contributes to the Metabolic Adaptation to Hypoxia in Mycobacterium tuberculosis.

Rittershaus ESC, Baek SH, Krieger IV, Nelson SJ, Cheng YS, Nambi S, Baker RE, Leszyk JD, Shaffer SA, Sacchettini JC, Sassetti CM.

Cell Chem Biol. 2018 Dec 20;25(12):1495-1505.e3. doi: 10.1016/j.chembiol.2018.09.009. Epub 2018 Oct 11.


The political biogeography of migratory marine predators.

Harrison AL, Costa DP, Winship AJ, Benson SR, Bograd SJ, Antolos M, Carlisle AB, Dewar H, Dutton PH, Jorgensen SJ, Kohin S, Mate BR, Robinson PW, Schaefer KM, Shaffer SA, Shillinger GL, Simmons SE, Weng KC, Gjerde KM, Block BA.

Nat Ecol Evol. 2018 Oct;2(10):1571-1578. doi: 10.1038/s41559-018-0646-8. Epub 2018 Sep 3.


Organochlorines, perfluoroalkyl substances, mercury, and egg incubation temperature in an Arctic seabird: Insights from data loggers.

Blévin P, Shaffer SA, Bustamante P, Angelier F, Picard B, Herzke D, Moe B, Gabrielsen GW, Bustnes JO, Chastel O.

Environ Toxicol Chem. 2018 Nov;37(11):2881-2894. doi: 10.1002/etc.4250. Epub 2018 Oct 5.


C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2.

Gao XD, Tu LC, Mir A, Rodriguez T, Ding Y, Leszyk J, Dekker J, Shaffer SA, Zhu LJ, Wolfe SA, Sontheimer EJ.

Nat Methods. 2018 Jun;15(6):433-436. doi: 10.1038/s41592-018-0006-2. Epub 2018 May 7.


Convergence of marine megafauna movement patterns in coastal and open oceans.

Sequeira AMM, Rodríguez JP, Eguíluz VM, Harcourt R, Hindell M, Sims DW, Duarte CM, Costa DP, Fernández-Gracia J, Ferreira LC, Hays GC, Heupel MR, Meekan MG, Aven A, Bailleul F, Baylis AMM, Berumen ML, Braun CD, Burns J, Caley MJ, Campbell R, Carmichael RH, Clua E, Einoder LD, Friedlaender A, Goebel ME, Goldsworthy SD, Guinet C, Gunn J, Hamer D, Hammerschlag N, Hammill M, Hückstädt LA, Humphries NE, Lea MA, Lowther A, Mackay A, McHuron E, McKenzie J, McLeay L, McMahon CR, Mengersen K, Muelbert MMC, Pagano AM, Page B, Queiroz N, Robinson PW, Shaffer SA, Shivji M, Skomal GB, Thorrold SR, Villegas-Amtmann S, Weise M, Wells R, Wetherbee B, Wiebkin A, Wienecke B, Thums M.

Proc Natl Acad Sci U S A. 2018 Mar 20;115(12):3072-3077. doi: 10.1073/pnas.1716137115. Epub 2018 Feb 26.


Egg turning behavior and incubation temperature in Forster's terns in relation to mercury contamination.

Taylor GT, Ackerman JT, Shaffer SA.

PLoS One. 2018 Feb 15;13(2):e0191390. doi: 10.1371/journal.pone.0191390. eCollection 2018.


Population-level plasticity in foraging behavior of western gulls (Larus occidentalis).

Shaffer SA, Cockerham S, Warzybok P, Bradley RW, Jahncke J, Clatterbuck CA, Lucia M, Jelincic JA, Cassell AL, Kelsey EC, Adams J.

Mov Ecol. 2017 Dec 19;5:27. doi: 10.1186/s40462-017-0118-9. eCollection 2017.


Extracellular vesicles from mice with alcoholic liver disease carry a distinct protein cargo and induce macrophage activation through heat shock protein 90.

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.

Hepatology. 2018 May;67(5):1986-2000. doi: 10.1002/hep.29732. Epub 2018 Apr 6.


Cyclic GMP-AMP Synthase Is the Cytosolic Sensor of Plasmodium falciparum Genomic DNA and Activates Type I IFN in Malaria.

Gallego-Marin C, Schrum JE, Andrade WA, Shaffer SA, Giraldo LF, Lasso AM, Kurt-Jones EA, Fitzgerald KA, Golenbock DT.

J Immunol. 2018 Jan 15;200(2):768-774. doi: 10.4049/jimmunol.1701048. Epub 2017 Dec 6.


RNA sequencing and proteomics approaches reveal novel deficits in the cortex of Mecp2-deficient mice, a model for Rett syndrome.

Pacheco NL, Heaven MR, Holt LM, Crossman DK, Boggio KJ, Shaffer SA, Flint DL, Olsen ML.

Mol Autism. 2017 Oct 24;8:56. doi: 10.1186/s13229-017-0174-4. eCollection 2017.


Menthol enhances nicotine-induced locomotor sensitization and in vivo functional connectivity in adolescence.

Thompson MF, Poirier GL, Dávila-García MI, Huang W, Tam K, Robidoux M, Dubuke ML, Shaffer SA, Colon-Perez L, Febo M, DiFranza JR, King JA.

J Psychopharmacol. 2018 Mar;32(3):332-343. doi: 10.1177/0269881117719265. Epub 2017 Jul 26.


Nitric oxide prevents a pathogen-permissive granulocytic inflammation during tuberculosis.

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.

Nat Microbiol. 2017 May 15;2:17072. doi: 10.1038/nmicrobiol.2017.72.


Innate immune signaling in Drosophila is regulated by transforming growth factor β (TGFβ)-activated kinase (Tak1)-triggered ubiquitin editing.

Chen L, Paquette N, Mamoor S, Rus F, Nandy A, Leszyk J, Shaffer SA, Silverman N.

J Biol Chem. 2017 May 26;292(21):8738-8749. doi: 10.1074/jbc.M117.788158. Epub 2017 Apr 4.


Novel allele-specific quantification methods reveal no effects of adult onset CAG repeats on HTT mRNA and protein levels.

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.

Hum Mol Genet. 2017 Apr 1;26(7):1258-1267. doi: 10.1093/hmg/ddx033.


High-resolution proteomic and lipidomic analysis of exosomes and microvesicles from different cell sources.

Haraszti RA, Didiot MC, Sapp E, Leszyk J, Shaffer SA, Rockwell HE, Gao F, Narain NR, DiFiglia M, Kiebish MA, Aronin N, Khvorova A.

J Extracell Vesicles. 2016 Nov 17;5:32570. doi: 10.3402/jev.v5.32570. eCollection 2016.


A novel transgenic mouse model of lysosomal storage disorder.

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.

Am J Physiol Gastrointest Liver Physiol. 2016 Nov 1;311(5):G903-G919. doi: 10.1152/ajpgi.00313.2015. Epub 2016 Sep 22.


Effects of El Niño-driven changes in wind patterns on North Pacific albatrosses.

Thorne LH, Conners MG, Hazen EL, Bograd SJ, Antolos M, Costa DP, Shaffer SA.

J R Soc Interface. 2016 Jun;13(119). pii: 20160196. doi: 10.1098/rsif.2016.0196.


Type I Interferon Induction by Neisseria gonorrhoeae: Dual Requirement of Cyclic GMP-AMP Synthase and Toll-like Receptor 4.

Andrade WA, Agarwal S, Mo S, Shaffer SA, Dillard JP, Schmidt T, Hornung V, Fitzgerald KA, Kurt-Jones EA, Golenbock DT.

Cell Rep. 2016 Jun 14;15(11):2438-48. doi: 10.1016/j.celrep.2016.05.030. Epub 2016 Jun 2.


Peripartum neuroactive steroid and γ-aminobutyric acid profiles in women at-risk for postpartum depression.

Deligiannidis KM, Kroll-Desrosiers AR, Mo S, Nguyen HP, Svenson A, Jaitly N, Hall JE, Barton BA, Rothschild AJ, Shaffer SA.

Psychoneuroendocrinology. 2016 Aug;70:98-107. doi: 10.1016/j.psyneuen.2016.05.010. Epub 2016 May 9.


Spatially distinct and metabolically active membrane domain in mycobacteria.

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.

Proc Natl Acad Sci U S A. 2016 May 10;113(19):5400-5. doi: 10.1073/pnas.1525165113. Epub 2016 Apr 25.


Key Questions in Marine Megafauna Movement Ecology.

Hays GC, Ferreira LC, Sequeira AMM, Meekan MG, Duarte CM, Bailey H, Bailleul F, Bowen WD, Caley MJ, Costa DP, Eguíluz VM, Fossette S, Friedlaender AS, Gales N, Gleiss AC, Gunn J, Harcourt R, Hazen EL, Heithaus MR, Heupel M, Holland K, Horning M, Jonsen I, Kooyman GL, Lowe CG, Madsen PT, Marsh H, Phillips RA, Righton D, Ropert-Coudert Y, Sato K, Shaffer SA, Simpfendorfer CA, Sims DW, Skomal G, Takahashi A, Trathan PN, Wikelski M, Womble JN, Thums M.

Trends Ecol Evol. 2016 Jun;31(6):463-475. doi: 10.1016/j.tree.2016.02.015. Epub 2016 Mar 12.


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.

Clement CC, Becerra A, Yin L, Zolla V, Huang L, Merlin S, Follenzi A, Shaffer SA, Stern LJ, Santambrogio L.

J Biol Chem. 2016 Mar 11;291(11):5576-95. doi: 10.1074/jbc.M115.655738. Epub 2016 Jan 6.


Wintering North Pacific black-legged kittiwakes balance spatial flexibility and consistency.

Orben RA, Paredes R, Roby DD, Irons DB, Shaffer SA.

Mov Ecol. 2015 Oct 21;3:36. doi: 10.1186/s40462-015-0059-0. eCollection 2015.


The Exocyst Subunit Sec6 Interacts with Assembled Exocytic SNARE Complexes.

Dubuke ML, Maniatis S, Shaffer SA, Munson M.

J Biol Chem. 2015 Nov 20;290(47):28245-56. doi: 10.1074/jbc.M115.673806. Epub 2015 Oct 7.


Foraging behavior links climate variability and reproduction in North Pacific albatrosses.

Thorne LH, Hazen EL, Bograd SJ, Foley DG, Conners MG, Kappes MA, Kim HM, Costa DP, Tremblay Y, Shaffer SA.

Mov Ecol. 2015 Oct 1;3:27. doi: 10.1186/s40462-015-0050-9. eCollection 2015.


Reproductive constraints influence habitat accessibility, segregation, and preference of sympatric albatross species.

Kappes MA, Shaffer SA, Tremblay Y, Foley DG, Palacios DM, Bograd SJ, Costa DP.

Mov Ecol. 2015 Sep 29;3:34. doi: 10.1186/s40462-015-0063-4. eCollection 2015.


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.

Vodicka P, Mo S, Tousley A, Green KM, Sapp E, Iuliano M, Sadri-Vakili G, Shaffer SA, Aronin N, DiFiglia M, Kegel-Gleason KB.

J Huntingtons Dis. 2015;4(2):187-201. doi: 10.3233/JHD-150149.


Shadowed by scale: subtle behavioral niche partitioning in two sympatric, tropical breeding albatross species.

Conners MG, Hazen EL, Costa DP, Shaffer SA.

Mov Ecol. 2015 Sep 21;3(1):28. doi: 10.1186/s40462-015-0060-7. eCollection 2015.


Macrophage secretome from women with HIV-associated neurocognitive disorders.

Colon K, Perez-Laspiur J, Quiles R, Rodriguez Y, Wojna V, Shaffer SA, Leszyk J, Skolasky RL Jr, Melendez LM.

Proteomics Clin Appl. 2016 Feb;10(2):136-43. doi: 10.1002/prca.201400203. Epub 2015 Nov 18.


Interacting partners of macrophage-secreted cathepsin B contribute to HIV-induced neuronal apoptosis.

Cantres-Rosario YM, Hernandez N, Negron K, Perez-Laspiur J, Leszyk J, Shaffer SA, Meléndez LM.

AIDS. 2015 Oct 23;29(16):2081-92. doi: 10.1097/QAD.0000000000000823.


Body size affects individual winter foraging strategies of thick-billed murres in the Bering Sea.

Orben RA, Paredes R, Roby DD, Irons DB, Shaffer SA.

J Anim Ecol. 2015 Nov;84(6):1589-99. doi: 10.1111/1365-2656.12410. Epub 2015 Sep 14.


Opposing calcium-dependent signalling pathways control skeletal muscle differentiation by regulating a chromatin remodelling enzyme.

Nasipak BT, Padilla-Benavides T, Green KM, Leszyk JD, Mao W, Konda S, Sif S, Shaffer SA, Ohkawa Y, Imbalzano AN.

Nat Commun. 2015 Jun 17;6:7441. doi: 10.1038/ncomms8441.


The Oxidative Stress Network of Mycobacterium tuberculosis Reveals Coordination between Radical Detoxification Systems.

Nambi S, Long JE, Mishra BB, Baker R, Murphy KC, Olive AJ, Nguyen HP, Shaffer SA, Sassetti CM.

Cell Host Microbe. 2015 Jun 10;17(6):829-37. doi: 10.1016/j.chom.2015.05.008.


Systemic AAV9 gene transfer in adult GM1 gangliosidosis mice reduces lysosomal storage in CNS and extends lifespan.

Weismann CM, Ferreira J, Keeler AM, Su Q, Qui L, Shaffer SA, Xu Z, Gao G, Sena-Esteves M.

Hum Mol Genet. 2015 Aug 1;24(15):4353-64. doi: 10.1093/hmg/ddv168. Epub 2015 May 10.


Daily activity budgets reveal a quasi-flightless stage during non-breeding in Hawaiian albatrosses.

Gutowsky SE, Gutowsky LF, Jonsen ID, Leonard ML, Naughton MB, Romano MD, Shaffer SA.

Mov Ecol. 2014 Nov 19;2(1):23. doi: 10.1186/s40462-014-0023-4. eCollection 2014.


Subnuclear domain proteins in cancer cells support the functions of RUNX2 in the DNA damage response.

Yang S, Quaresma AJ, Nickerson JA, Green KM, Shaffer SA, Imbalzano AN, Martin-Buley LA, Lian JB, Stein JL, van Wijnen AJ, Stein GS.

J Cell Sci. 2015 Feb 15;128(4):728-40. doi: 10.1242/jcs.160051. Epub 2015 Jan 20.


A loss of FUS/TLS function leads to impaired cellular proliferation.

Ward CL, Boggio KJ, Johnson BN, Boyd JB, Douthwright S, Shaffer SA, Landers JE, Glicksman MA, Bosco DA.

Cell Death Dis. 2014 Dec 11;5:e1572. doi: 10.1038/cddis.2014.508.


Comparison of data acquisition strategies on quadrupole ion trap instrumentation for shotgun proteomics.

Canterbury JD, Merrihew GE, MacCoss MJ, Goodlett DR, Shaffer SA.

J Am Soc Mass Spectrom. 2014 Dec;25(12):2048-59. doi: 10.1007/s13361-014-0981-1. Epub 2014 Sep 27.


Identification of a misfolded region in superoxide dismutase 1 that is exposed in amyotrophic lateral sclerosis.

Rotunno MS, Auclair JR, Maniatis S, Shaffer SA, Agar J, Bosco DA.

J Biol Chem. 2014 Oct 10;289(41):28527-38. doi: 10.1074/jbc.M114.581801. Epub 2014 Aug 27.

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