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Items: 1 to 50 of 2125

1.

Identifying and characterising the impact of excitability in a mathematical model of tumour-immune interactions.

Osojnik A, Gaffney EA, Davies M, Yates JWT, Byrne HM.

J Theor Biol. 2020 Mar 18:110250. doi: 10.1016/j.jtbi.2020.110250. [Epub ahead of print]

PMID:
32199856
2.

PTPN22 phosphorylation acts as a molecular rheostat for the inhibition of TCR signaling.

Yang S, Svensson MND, Harder NHO, Hsieh WC, Santelli E, Kiosses WB, Moresco JJ, Yates JR 3rd, King CC, Liu L, Stanford SM, Bottini N.

Sci Signal. 2020 Mar 17;13(623). pii: eaaw8130. doi: 10.1126/scisignal.aaw8130.

PMID:
32184287
3.

National Cancer Institute Think-Tank Meeting Report on Proteomic Cartography and Biomarkers at the Single-Cell Level: Interrogation of Premalignant Lesions.

Kagan J, Moritz RL, Mazurchuk R, Lee JH, Kharchenko PV, Rozenblatt-Rosen O, Ruppin E, Edfors F, Ginty F, Goltsev Y, Wells JA, LaCava J, Riesterer JL, Germain RN, Shi T, Chee MS, Budnik BA, Yates JR 3rd, Chait BT, Moffitt JR, Smith RD, Srivastava S.

J Proteome Res. 2020 Apr 2. doi: 10.1021/acs.jproteome.0c00021. [Epub ahead of print]

PMID:
32163288
4.

The Factor H-binding site of CspZ as a protective target against multi-strain, tick-transmitted Lyme disease.

Marcinkiewicz AL, Lieknina I, Yang X, Lederman PL, Hart TM, Yates J, Chen WH, Bottazzi ME, Mantis NJ, Kraiczy P, Pal U, Tars K, Lin YP.

Infect Immun. 2020 Mar 2. pii: IAI.00956-19. doi: 10.1128/IAI.00956-19. [Epub ahead of print]

PMID:
32122944
5.

Proteomics of Select Neglected Tropical Diseases.

Saviola AJ, Negrão F, Yates JR 3rd.

Annu Rev Anal Chem (Palo Alto Calif). 2020 Feb 28. doi: 10.1146/annurev-anchem-091619-093003. [Epub ahead of print]

PMID:
32109150
6.

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase.

Catania S, Dumesic PA, Pimentel H, Nasif A, Stoddard CI, Burke JE, Diedrich JK, Cooke S, Shea T, Gienger E, Lintner R, Yates JR 3rd, Hajkova P, Narlikar GJ, Cuomo CA, Pritchard JK, Madhani HD.

Cell. 2020 Feb 20;180(4):816. doi: 10.1016/j.cell.2020.02.006. No abstract available.

PMID:
32084344
7.

Time-resolved proteomic profile of Amblyomma americanum tick saliva during feeding.

Kim TK, Tirloni L, Pinto AFM, Diedrich JK, Moresco JJ, Yates JR 3rd, da Silva Vaz I Jr, Mulenga A.

PLoS Negl Trop Dis. 2020 Feb 12;14(2):e0007758. doi: 10.1371/journal.pntd.0007758. eCollection 2020 Feb.

8.

Increased circulating levels of Factor H-Related Protein 4 are strongly associated with age-related macular degeneration.

Cipriani V, Lorés-Motta L, He F, Fathalla D, Tilakaratna V, McHarg S, Bayatti N, Acar İE, Hoyng CB, Fauser S, Moore AT, Yates JRW, de Jong EK, Morgan BP, den Hollander AI, Bishop PN, Clark SJ.

Nat Commun. 2020 Feb 7;11(1):778. doi: 10.1038/s41467-020-14499-3.

9.

Twelve Rules for Science (Yates Lab Version).

Yates JR 3rd.

J Proteome Res. 2020 Mar 6;19(3):991-992. doi: 10.1021/acs.jproteome.0c00040. Epub 2020 Feb 7. No abstract available.

PMID:
32030981
10.

Pulse Wave Velocity in Chronic Obstructive Pulmonary Disease and the Impact of Inhaled Therapy (SUMMIT): A Randomized Double-blind Clinical Trial.

Crim C, Anderson JA, Calverley PMA, Celli BR, Cowans NJ, Martinez FJ, Newby DE, Vestbo J, Yates JC, Brook RD.

Am J Respir Crit Care Med. 2020 Feb 4. doi: 10.1164/rccm.201908-1639LE. [Epub ahead of print] No abstract available.

PMID:
32017597
11.

Measuring multiple 17O-13C J-couplings in naphthalaldehydic acid: a combined solid state NMR and density functional theory approach.

Rees GJ, Day SP, Barnsley KE, Iuga D, Yates JR, Wallis JD, Hanna JV.

Phys Chem Chem Phys. 2020 Feb 12;22(6):3400-3413. doi: 10.1039/c9cp03977e.

PMID:
31984388
12.

EThcD and 213 nm UVPD for Top-Down Analysis of Bovine Seminal Plasma Proteoforms on Electrophoretic and Chromatographic Time Frames.

Gomes FP, Diedrich JK, Saviola AJ, Memili E, Moura AA, Yates JR 3rd.

Anal Chem. 2020 Feb 18;92(4):2979-2987. doi: 10.1021/acs.analchem.9b03856. Epub 2020 Jan 29.

PMID:
31962043
13.

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase.

Catania S, Dumesic PA, Pimentel H, Nasif A, Stoddard CI, Burke JE, Diedrich JK, Cooke S, Shea T, Gienger E, Lintner R, Yates JR 3rd, Hajkova P, Narlikar GJ, Cuomo CA, Pritchard JK, Madhani HD.

Cell. 2020 Jan 23;180(2):263-277.e20. doi: 10.1016/j.cell.2019.12.012. Epub 2020 Jan 16. Erratum in: Cell. 2020 Feb 20;180(4):816.

PMID:
31955845
14.

Correction: Interactome analysis of the lymphocytic choriomeningitis virus nucleoprotein in infected cells reveals ATPase Na+/K+ transporting subunit Alpha 1 and prohibitin as host-cell factors involved in the life cycle of mammarenaviruses.

Iwasaki M, Minder P, Caì Y, Kuhn JH, Yates JR 3rd, Torbett BE, de la Torre JC.

PLoS Pathog. 2020 Jan 6;16(1):e1008289. doi: 10.1371/journal.ppat.1008289. eCollection 2020 Jan.

15.

Osimertinib for Patients With Leptomeningeal Metastases Associated With EGFR T790M-Positive Advanced NSCLC: The AURA Leptomeningeal Metastases Analysis.

Ahn MJ, Chiu CH, Cheng Y, Han JY, Goldberg SB, Greystoke A, Crawford J, Zhao Y, Huang X, Johnson M, Vishwanathan K, Yates JWT, Brown AP, Mendoza-Naranjo A, Mok T.

J Thorac Oncol. 2020 Apr;15(4):637-648. doi: 10.1016/j.jtho.2019.12.113. Epub 2019 Dec 27.

16.

Improving Proteomics Data Reproducibility with a Dual-Search Strategy.

Fernández-Costa C, Martínez-Bartolomé S, McClatchy D, Yates JR 3rd.

Anal Chem. 2020 Jan 21;92(2):1697-1701. doi: 10.1021/acs.analchem.9b04955. Epub 2020 Jan 9.

PMID:
31880919
17.

Weak Intermolecular CH···N Hydrogen Bonding: Determination of 13CH-15N Hydrogen-Bond Mediated J Couplings by Solid-State NMR Spectroscopy and First-Principles Calculations.

Webber AL, Yates JR, Zilka M, Sturniolo S, Uldry AC, Corlett EK, Pickard CJ, Pérez-Torralba M, Angeles Garcia M, Santa Maria D, Claramunt RM, Brown SP.

J Phys Chem A. 2020 Jan 23;124(3):560-572. doi: 10.1021/acs.jpca.9b10726. Epub 2020 Jan 9.

PMID:
31880451
18.

A simple linear readout of MT supports motion direction-discrimination performance.

Yates JL, Katz LN, Levi AJ, Pillow JW, Huk AC.

J Neurophysiol. 2020 Feb 1;123(2):682-694. doi: 10.1152/jn.00117.2019. Epub 2019 Dec 18.

PMID:
31852399
19.

Motion Perception in the Common Marmoset.

Cloherty SL, Yates JL, Graf D, DeAngelis GC, Mitchell JF.

Cereb Cortex. 2019 Dec 11. pii: bhz267. doi: 10.1093/cercor/bhz267. [Epub ahead of print]

PMID:
31828299
20.

Quantitative In Vivo Proteomics of Metformin Response in Liver Reveals AMPK-Dependent and -Independent Signaling Networks.

Stein BD, Calzolari D, Hellberg K, Hu YS, He L, Hung CM, Toyama EQ, Ross DS, Lillemeier BF, Cantley LC, Yates JR 3rd, Shaw RJ.

Cell Rep. 2019 Dec 3;29(10):3331-3348.e7. doi: 10.1016/j.celrep.2019.10.117.

21.

The KLDpT activation loop motif is critical for MARK kinase activity.

Sonntag T, Moresco JJ, Yates JR 3rd, Montminy M.

PLoS One. 2019 Dec 3;14(12):e0225727. doi: 10.1371/journal.pone.0225727. eCollection 2019.

22.

Response to "Comment on 'Regularized SCAN functional'" [J. Chem. Phys. 151, 207101 (2019)].

Bartók AP, Yates JR.

J Chem Phys. 2019 Nov 28;151(20):207102. doi: 10.1063/1.5128484. No abstract available.

PMID:
31779330
23.

Aiding end-of-life medical decision-making: A Cardinal Issue Perspective.

Yan H, Kukora SK, Arslanian-Engoren C, Deldin PJ, Pituch K, Yates JF.

Palliat Support Care. 2020 Feb;18(1):1-3. doi: 10.1017/S1478951519000981. No abstract available.

PMID:
31775941
24.

Integrative proteomics and pharmacogenomics analysis of methylphenidate treatment response.

da Silva BS, Leffa DT, Beys-da-Silva WO, Torres ILS, Rovaris DL, Victor MM, Rohde LA, Mota NR, Oliveira C, Berger M, Yates JR 3rd, Sabnis R, Peña RD, Campos AR, Grevet EH, Santi L, Bau CHD, Contini V.

Transl Psychiatry. 2019 Nov 18;9(1):308. doi: 10.1038/s41398-019-0649-5.

25.

Use of YouTube™ as a self-directed learning resource in oral surgery among undergraduate dental students: a cross-sectional descriptive study.

Aldallal SN, Yates JM, Ajrash M.

Br J Oral Maxillofac Surg. 2019 Dec;57(10):1049-1052. doi: 10.1016/j.bjoms.2019.09.010. Epub 2019 Nov 4.

PMID:
31699466
26.

Function of the MYND Domain and C-Terminal Region in Regulating the Subcellular Localization and Catalytic Activity of the SMYD Family Lysine Methyltransferase Set5.

Jaiswal D, Turniansky R, Moresco JJ, Ikram S, Ramaprasad G, Akinwole A, Wolf J, Yates JR 3rd, Green EM.

Mol Cell Biol. 2020 Jan 3;40(2). pii: e00341-19. doi: 10.1128/MCB.00341-19. Print 2020 Jan 3.

PMID:
31685550
27.

Wannier90 as a community code: new features and applications.

Pizzi G, Vitale V, Arita R, Blügel S, Freimuth F, Géranton G, Gibertini M, Gresch D, Johnson C, Koretsune T, Ibañez-Azpiroz J, Lee H, Lihm JM, Marchand D, Marrazzo A, Mokrousov Y, Mustafa JI, Nohara Y, Nomura Y, Paulatto L, Poncé S, Ponweiser T, Qiao J, Thöle F, Tsirkin SS, Wierzbowska M, Marzari N, Vanderbilt D, Souza I, Mostofi AA, Yates JR.

J Phys Condens Matter. 2019 Oct 28;32(16):165902. doi: 10.1088/1361-648X/ab51ff. [Epub ahead of print]

PMID:
31658458
28.

Molecular determinants of drug response in TNBC cell lines.

Merrill NM, Lachacz EJ, Vandecan NM, Ulintz PJ, Bao L, Lloyd JP, Yates JA, Morikawa A, Merajver SD, Soellner MB.

Breast Cancer Res Treat. 2020 Jan;179(2):337-347. doi: 10.1007/s10549-019-05473-9. Epub 2019 Oct 26.

PMID:
31655920
29.

Biochemical analysis of protein arginylation.

Wang J, Yates JR 3rd, Kashina A.

Methods Enzymol. 2019;626:89-113. doi: 10.1016/bs.mie.2019.07.028. Epub 2019 Aug 1.

PMID:
31606094
30.

Tandem Mass Tag Proteomic Analysis of in Vitro and in Vivo Models of Cutaneous Leishmaniasis Reveals Parasite-Specific and Nonspecific Modulation of Proteins in the Host.

Negrão F, Diedrich JK, Giorgio S, Eberlin MN, Yates JR 3rd.

ACS Infect Dis. 2019 Dec 13;5(12):2136-2147. doi: 10.1021/acsinfecdis.9b00275. Epub 2019 Oct 24.

PMID:
31600437
31.

Transplantation of Renal Allograft After Removal of Renal Cell Carcinoma: Case Report and Review of the Literature.

Tran AP, Martins PN, Papazian ZG, Vanguri VK, Movahedi B, Fan PY, Bodziak KA, Yates JK, Sokoloff MH, Bozorgzadeh A.

Exp Clin Transplant. 2019 Oct 1. doi: 10.6002/ect.2018.0215. [Epub ahead of print]

32.

Quantifying Preexisting Resistant and Persister Populations-Letter.

Mistry HB, Yates JWT.

Cancer Res. 2019 Oct 1;79(19):5121. doi: 10.1158/0008-5472.CAN-19-2032. No abstract available.

PMID:
31575629
33.

Cytologic processing of ureteral microbiopsies is associated with higher sensitivity for detection of urothelial carcinoma compared with conventional biopsy processing.

Sheridan TB, Walavalkar V, Yates JK, Owens CL, Fischer AH.

J Am Soc Cytopathol. 2020 Jan - Feb;9(1):26-32. doi: 10.1016/j.jasc.2019.07.006. Epub 2019 Aug 8.

PMID:
31564532
34.

Long-term cognitive outcomes in tuberous sclerosis complex.

Tye C, Mcewen FS, Liang H, Underwood L, Woodhouse E, Barker ED, Sheerin F, Yates JRW, Bolton PF; Tuberous Sclerosis 2000 Study Group.

Dev Med Child Neurol. 2020 Mar;62(3):322-329. doi: 10.1111/dmcn.14356. Epub 2019 Sep 19.

35.

The interactome of 2-Cys peroxiredoxins in Plasmodium falciparum.

Brandstaedter C, Delahunty C, Schipper S, Rahlfs S, Yates JR 3rd, Becker K.

Sci Rep. 2019 Sep 19;9(1):13542. doi: 10.1038/s41598-019-49841-3.

36.

Breast cancers utilize hypoxic glycogen stores via PYGB, the brain isoform of glycogen phosphorylase, to promote metastatic phenotypes.

Altemus MA, Goo LE, Little AC, Yates JA, Cheriyan HG, Wu ZF, Merajver SD.

PLoS One. 2019 Sep 19;14(9):e0220973. doi: 10.1371/journal.pone.0220973. eCollection 2019.

37.

Effects of d-amphetamine and MK-801 on impulsive choice: Modulation by schedule of reinforcement and delay length.

Yates JR, Day HA, Evans KE, Igwe HO, Kappesser JL, Miller AL, Murray CP, Torline BT, Ellis AL, Stacy WL.

Behav Brain Res. 2019 Dec 30;376:112228. doi: 10.1016/j.bbr.2019.112228. Epub 2019 Sep 11.

PMID:
31520689
38.

Optimization of Cancer Treatment in the Frequency Domain.

Schulthess P, Rottschäfer V, Yates JWT, van der Graaf PH.

AAPS J. 2019 Sep 11;21(6):106. doi: 10.1208/s12248-019-0372-4.

39.

Quantifying Drug-Induced Bone Marrow Toxicity Using a Novel Haematopoiesis Systems Pharmacology Model.

Fornari C, Oplustil O'Connor L, Pin C, Smith A, Yates JWT, Cheung SYA, Jodrell DI, Mettetal JT, Collins TA.

CPT Pharmacometrics Syst Pharmacol. 2019 Nov;8(11):858-868. doi: 10.1002/psp4.12459. Epub 2019 Oct 20.

40.

Proteomics of Rat Lungs Infected by Cryptococcus gattii Reveals a Potential Warburg-like Effect.

Rosa RL, Berger M, Santi L, Driemeier D, Barros Terraciano P, Campos AR, Guimarães JA, Vainstein MH, Yates JR 3rd, Beys-da-Silva WO.

J Proteome Res. 2019 Nov 1;18(11):3885-3895. doi: 10.1021/acs.jproteome.9b00326. Epub 2019 Sep 26.

PMID:
31502459
41.

O-GlcNAcase targets pyruvate kinase M2 to regulate tumor growth.

Singh JP, Qian K, Lee JS, Zhou J, Han X, Zhang B, Ong Q, Ni W, Jiang M, Ruan HB, Li MD, Zhang K, Ding Z, Lee P, Singh K, Wu J, Herzog RI, Kaech S, Wendel HG, Yates JR 3rd, Han W, Sherwin RS, Nie Y, Yang X.

Oncogene. 2020 Jan;39(3):560-573. doi: 10.1038/s41388-019-0975-3. Epub 2019 Sep 9.

42.

Ready for the journey: a comparative proteome profiling of porcine cauda epididymal fluid and spermatozoa.

Weber A, Argenti LE, de Souza APB, Santi L, Beys-da-Silva WO, Yates JR 3rd, Bustamante-Filho IC.

Cell Tissue Res. 2020 Feb;379(2):389-405. doi: 10.1007/s00441-019-03080-0. Epub 2019 Aug 23.

PMID:
31444576
43.

The Retinal Ganglion Cell Transportome Identifies Proteins Transported to Axons and Presynaptic Compartments in the Visual System In Vivo.

Schiapparelli LM, Shah SH, Ma Y, McClatchy DB, Sharma P, Li J, Yates JR 3rd, Goldberg JL, Cline HT.

Cell Rep. 2019 Aug 13;28(7):1935-1947.e5. doi: 10.1016/j.celrep.2019.07.037.

44.

Recent trends of capillary electrophoresis-mass spectrometry in proteomics research.

Gomes FP, Yates JR 3rd.

Mass Spectrom Rev. 2019 Nov;38(6):445-460. doi: 10.1002/mas.21599. Epub 2019 Aug 12. Review.

PMID:
31407381
45.

Comparison of CRISPR Genomic Tagging for Affinity Purification and Endogenous Immunoprecipitation Coupled with Quantitative Mass Spectrometry To Identify the Dynamic AMPKα2 Interactome.

Stein BD, Herzig S, Martínez-Bartolomé S, Lavallée-Adam M, Shaw RJ, Yates JR 3rd.

J Proteome Res. 2019 Oct 4;18(10):3703-3714. doi: 10.1021/acs.jproteome.9b00378. Epub 2019 Sep 6.

PMID:
31398040
46.

Development of Therapeutic Anti-JAGGED1 Antibodies for Cancer Therapy.

Masiero M, Li D, Whiteman P, Bentley C, Greig J, Hassanali T, Watts S, Stribbling S, Yates J, Bealing E, Li JL, Chillakuri C, Sheppard D, Serres S, Sarmiento-Soto M, Larkin J, Sibson NR, Handford PA, Harris AL, Banham AH.

Mol Cancer Ther. 2019 Nov;18(11):2030-2042. doi: 10.1158/1535-7163.MCT-18-1176. Epub 2019 Aug 8.

PMID:
31395687
47.

Dataset supporting the proteomic differences found between excretion/secretion products from two isolates of Fasciola hepatica newly excysted juveniles (NEJ) derived from different snail hosts.

Di Maggio LS, Tirloni L, Pinto AFM, Diedrich JK, Yates JR 3rd, Carmona C, Berasain P, da Silva Vaz I Jr.

Data Brief. 2019 Jul 15;25:104272. doi: 10.1016/j.dib.2019.104272. eCollection 2019 Aug.

48.

Why is the H3+ hot spot above Jupiter's Great Red Spot so hot?

Ray LC, Lorch CTS, O'Donoghue J, Yates JN, Badman SV, Smith CGA, Stallard TS.

Philos Trans A Math Phys Eng Sci. 2019 Sep 23;377(2154):20180407. doi: 10.1098/rsta.2018.0407. Epub 2019 Aug 5.

49.

Exosomes regulate neurogenesis and circuit assembly.

Sharma P, Mesci P, Carromeu C, McClatchy DR, Schiapparelli L, Yates JR 3rd, Muotri AR, Cline HT.

Proc Natl Acad Sci U S A. 2019 Aug 6;116(32):16086-16094. doi: 10.1073/pnas.1902513116. Epub 2019 Jul 18.

50.

Outbreak strain characterisation and pharyngeal carriage detection following a protracted group B meningococcal outbreak in adolescents in South-West England.

Clark SA, Lucidarme J, Angel G, Lekshmi A, Morales-Aza B, Willerton L, Campbell H, Gray SJ, Ladhani SN, Wade M, Ramsay M, Yates J, Finn A, Borrow R.

Sci Rep. 2019 Jul 10;9(1):9990. doi: 10.1038/s41598-019-46483-3.

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