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Items: 1 to 50 of 1005

1.

An overview of Phoneutria nigriventer spider venom using combined transcriptomic and proteomic approaches.

Diniz MRV, Paiva ALB, Guerra-Duarte C, Nishiyama MY Jr, Mudadu MA, Oliveira U, Borges MH, Yates JR, Junqueira-de-Azevedo IL.

PLoS One. 2018 Aug 1;13(8):e0200628. doi: 10.1371/journal.pone.0200628. eCollection 2018.

2.

Structural Analysis of Hippocampal Kinase Signal Transduction.

McClatchy DB, Yu NK, Martínez-Bartolomé S, Patel R, Pelletier AR, Lavalle-Adam M, Powell SB, Roberto M, Yates JR.

ACS Chem Neurosci. 2018 Aug 13. doi: 10.1021/acschemneuro.8b00284. [Epub ahead of print]

PMID:
30053369
3.

Quantitative analysis of newly synthesized proteins.

Ma Y, McClatchy DB, Barkallah S, Wood WW, Yates JR 3rd.

Nat Protoc. 2018 Aug;13(8):1744-1762. doi: 10.1038/s41596-018-0012-y.

PMID:
30038347
4.

Effects of GluN2B-selective antagonists on delay and probability discounting in male rats: Modulation by delay/probability presentation order.

Yates JR, Prior NA, Chitwood MR, Day HA, Heidel JR, Hopkins SE, Muncie BT, Paradella-Bradley TA, Sestito AP, Vecchiola AN, Wells EE.

Exp Clin Psychopharmacol. 2018 Jul 23. doi: 10.1037/pha0000216. [Epub ahead of print]

PMID:
30035577
5.

Innovations in Proteomics: The Drive to Single Cells.

Yates JR 3rd.

J Proteome Res. 2018 Aug 3;17(8):2563-2564. doi: 10.1021/acs.jproteome.8b00484. Epub 2018 Jul 19. No abstract available.

PMID:
30024162
6.

Quantitative temporal analysis of protein dynamics in cardiac remodeling.

McClatchy DB, Ma Y, Liem DA, Ng DCM, Ping P, Yates JR 3rd.

J Mol Cell Cardiol. 2018 Jul 17;121:163-172. doi: 10.1016/j.yjmcc.2018.07.126. [Epub ahead of print]

PMID:
30009778
7.

Proteomics and pulse azidohomoalanine labeling of newly synthesized proteins: what are the potential applications?

Ma Y, Yates JR 3rd.

Expert Rev Proteomics. 2018 Jul;15(7):545-554. doi: 10.1080/14789450.2018.1500902. Epub 2018 Jul 23.

PMID:
30005169
8.

The human naive B cell repertoire contains distinct subclasses for a germline-targeting HIV-1 vaccine immunogen.

Havenar-Daughton C, Sarkar A, Kulp DW, Toy L, Hu X, Deresa I, Kalyuzhniy O, Kaushik K, Upadhyay AA, Menis S, Landais E, Cao L, Diedrich JK, Kumar S, Schiffner T, Reiss SM, Seumois G, Yates JR, Paulson JC, Bosinger SE, Wilson IA, Schief WR, Crotty S.

Sci Transl Med. 2018 Jul 4;10(448). pii: eaat0381. doi: 10.1126/scitranslmed.aat0381.

PMID:
29973404
9.

Nanoscale momentum-resolved vibrational spectroscopy.

Hage FS, Nicholls RJ, Yates JR, McCulloch DG, Lovejoy TC, Dellby N, Krivanek OL, Refson K, Ramasse QM.

Sci Adv. 2018 Jun 15;4(6):eaar7495. doi: 10.1126/sciadv.aar7495. eCollection 2018 Jun.

10.

Publisher Correction: ANKRD16 prevents neuron loss caused by an editing-defective tRNA synthetase.

Vo MN, Terrey M, Lee JW, Roy B, Moresco JJ, Sun L, Fu H, Liu Q, Weber TG, Yates JR 3rd, Fredrick K, Schimmel P, Ackerman SL.

Nature. 2018 Jun 20. doi: 10.1038/s41586-018-0271-3. [Epub ahead of print]

PMID:
29925958
11.

NRDE-2, the human homolog of fission yeast Nrl1, prevents DNA damage accumulation in human cells.

Richard P, Ogami K, Chen Y, Feng S, Moresco JJ, Yates JR 3rd, Manley JL.

RNA Biol. 2018 Aug 2:1-9. doi: 10.1080/15476286.2018.1467180. [Epub ahead of print]

PMID:
29902117
12.

Deducing the presence of proteins and proteoforms in quantitative proteomics.

Bamberger C, Martínez-Bartolomé S, Montgomery M, Pankow S, Hulleman JD, Kelly JW, Yates JR 3rd.

Nat Commun. 2018 Jun 13;9(1):2320. doi: 10.1038/s41467-018-04411-5.

13.

Secular changes in severity of intellectual disability in tuberous sclerosis complex: A reflection of improved identification and treatment of epileptic spasms?

Tye C, Thomas LE, Sampson JR, Lewis J, O'Callaghan F, Yates JRW, Bolton PF.

Epilepsia Open. 2018 Apr 6;3(2):276-280. doi: 10.1002/epi4.12111. eCollection 2018 Jun.

14.

Control of seed dormancy and germination by DOG1-AHG1 PP2C phosphatase complex via binding to heme.

Nishimura N, Tsuchiya W, Moresco JJ, Hayashi Y, Satoh K, Kaiwa N, Irisa T, Kinoshita T, Schroeder JI, Yates JR 3rd, Hirayama T, Yamazaki T.

Nat Commun. 2018 Jun 6;9(1):2132. doi: 10.1038/s41467-018-04437-9.

15.

Heterochromatin-Encoded Satellite RNAs Induce Breast Cancer.

Zhu Q, Hoong N, Aslanian A, Hara T, Benner C, Heinz S, Miga KH, Ke E, Verma S, Soroczynski J, Yates JR 3rd, Hunter T, Verma IM.

Mol Cell. 2018 Jun 7;70(5):842-853.e7. doi: 10.1016/j.molcel.2018.04.023. Epub 2018 May 31.

PMID:
29861157
16.

SHMT2 and the BRCC36/BRISC deubiquitinase regulate HIV-1 Tat K63-ubiquitylation and destruction by autophagy.

Xu M, Moresco JJ, Chang M, Mukim A, Smith D, Diedrich JK, Yates JR 3rd, Jones KA.

PLoS Pathog. 2018 May 23;14(5):e1007071. doi: 10.1371/journal.ppat.1007071. eCollection 2018 May.

17.

ANKRD16 prevents neuron loss caused by an editing-defective tRNA synthetase.

Vo MN, Terrey M, Lee JW, Roy B, Moresco JJ, Sun L, Fu H, Liu Q, Weber TG, Yates JR 3rd, Fredrick K, Schimmel P, Ackerman SL.

Nature. 2018 May;557(7706):510-515. doi: 10.1038/s41586-018-0137-8. Epub 2018 May 16. Erratum in: Nature. 2018 Jun 20;:.

PMID:
29769718
18.

PML Recruits TET2 to Regulate DNA Modification and Cell Proliferation in Response to Chemotherapeutic Agent.

Song C, Wang L, Wu X, Wang K, Xie D, Xiao Q, Li S, Jiang K, Liao L, Yates JR 3rd, Lee JD, Yang Q.

Cancer Res. 2018 May 15;78(10):2475-2489. doi: 10.1158/0008-5472.CAN-17-3091. Epub 2018 May 7.

PMID:
29735542
19.

Spliceosome Profiling Visualizes Operations of a Dynamic RNP at Nucleotide Resolution.

Burke JE, Longhurst AD, Merkurjev D, Sales-Lee J, Rao B, Moresco JJ, Yates JR 3rd, Li JJ, Madhani HD.

Cell. 2018 May 3;173(4):1014-1030.e17. doi: 10.1016/j.cell.2018.03.020.

PMID:
29727661
20.

Global site-specific analysis of glycoprotein N-glycan processing.

Cao L, Diedrich JK, Ma Y, Wang N, Pauthner M, Park SR, Delahunty CM, McLellan JS, Burton DR, Yates JR, Paulson JC.

Nat Protoc. 2018 Jun;13(6):1196-1212. doi: 10.1038/nprot.2018.024. Epub 2018 May 3.

PMID:
29725121
21.

Content Is King: Databases Preserve the Collective Information of Science.

Yates JR 3rd.

J Biomol Tech. 2018 Apr;29(1):1-3. doi: 10.7171/jbt.18-2901-002. Epub 2018 Mar 22.

22.

Effects of N-methyl-d-aspartate receptor (NMDAr) uncompetitive antagonists in a delay discounting paradigm using a concurrent-chains procedure.

Yates JR, Gunkel BT, Rogers KK, Breitenstein KA, Hughes MN, Johnson AB, Sharpe SM.

Behav Brain Res. 2018 Sep 3;349:125-129. doi: 10.1016/j.bbr.2018.03.039. Epub 2018 Mar 28.

PMID:
29604367
23.

PACOM: A Versatile Tool for Integrating, Filtering, Visualizing, and Comparing Multiple Large Mass Spectrometry Proteomics Data Sets.

Martínez-Bartolomé S, Medina-Aunon JA, López-García MÁ, González-Tejedo C, Prieto G, Navajas R, Salazar-Donate E, Fernández-Costa C, Yates JR 3rd, Albar JP.

J Proteome Res. 2018 Apr 6;17(4):1547-1558. doi: 10.1021/acs.jproteome.7b00858. Epub 2018 Mar 28.

PMID:
29558135
24.

A proteomic insight into vitellogenesis during tick ovary maturation.

Xavier MA, Tirloni L, Pinto AFM, Diedrich JK, Yates JR 3rd, Mulenga A, Logullo C, da Silva Vaz I Jr, Seixas A, Termignoni C.

Sci Rep. 2018 Mar 16;8(1):4698. doi: 10.1038/s41598-018-23090-2.

25.

Publisher Correction: Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid.

Song Y, Zhou H, Vo MN, Shi Y, Nawaz MH, Vargas-Rodriguez O, Diedrich JK, Yates JR 3rd, Kishi S, Musier-Forsyth K, Schimmel P.

Nat Commun. 2018 Mar 13;9(1):1113. doi: 10.1038/s41467-018-03594-1.

26.

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. 2018 Feb 20;14(2):e1006892. doi: 10.1371/journal.ppat.1006892. eCollection 2018 Feb.

27.

Increased proteomic complexity in Drosophila hybrids during development.

Bamberger C, Martínez-Bartolomé S, Montgomery M, Lavallée-Adam M, Yates JR 3rd.

Sci Adv. 2018 Feb 7;4(2):eaao3424. doi: 10.1126/sciadv.aao3424. eCollection 2018 Feb.

28.

The Speed of Publication.

Yates JR 3rd.

J Proteome Res. 2018 Mar 2;17(3):935. doi: 10.1021/acs.jproteome.8b00044. Epub 2018 Feb 8. No abstract available.

PMID:
29420038
29.

Role of the visual experience-dependent nascent proteome in neuronal plasticity.

Liu HH, McClatchy DB, Schiapparelli L, Shen W, Yates JR 3rd, Cline HT.

Elife. 2018 Feb 7;7. pii: e33420. doi: 10.7554/eLife.33420.

30.

Tick-Host Range Adaptation: Changes in Protein Profiles in Unfed Adult Ixodes scapularis and Amblyomma americanum Saliva Stimulated to Feed on Different Hosts.

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

Front Cell Infect Microbiol. 2017 Dec 19;7:517. doi: 10.3389/fcimb.2017.00517. eCollection 2017.

31.

Dissecting drug effects in preclinical models of impulsive choice: emphasis on glutamatergic compounds.

Yates JR.

Psychopharmacology (Berl). 2018 Mar;235(3):607-626. doi: 10.1007/s00213-017-4825-0. Epub 2018 Jan 6. Review.

PMID:
29305628
32.

Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid.

Song Y, Zhou H, Vo MN, Shi Y, Nawaz MH, Vargas-Rodriguez O, Diedrich JK, Yates JR, Kishi S, Musier-Forsyth K, Schimmel P.

Nat Commun. 2017 Dec 22;8(1):2281. doi: 10.1038/s41467-017-02201-z. Erratum in: Nat Commun. 2018 Mar 13;9(1):1113.

33.

Identification and characterization of proteins in the Amblyomma americanum tick cement cone.

Hollmann T, Kim TK, Tirloni L, Radulović ŽM, Pinto AFM, Diedrich JK, Yates JR 3rd, da Silva Vaz I Jr, Mulenga A.

Int J Parasitol. 2018 Mar;48(3-4):211-224. doi: 10.1016/j.ijpara.2017.08.018. Epub 2017 Dec 16.

PMID:
29258831
34.

Tin chemical shift anisotropy in tin dioxide: On ambiguity of CSA asymmetry derived from MAS spectra.

Aliev AE, Bartók AP, Yates JR.

Solid State Nucl Magn Reson. 2018 Feb;89:1-10. doi: 10.1016/j.ssnmr.2017.11.002. Epub 2017 Nov 28.

PMID:
29202302
35.

Amyloid Accumulation Drives Proteome-wide Alterations in Mouse Models of Alzheimer's Disease-like Pathology.

Savas JN, Wang YZ, DeNardo LA, Martinez-Bartolome S, McClatchy DB, Hark TJ, Shanks NF, Cozzolino KA, Lavallée-Adam M, Smukowski SN, Park SK, Kelly JW, Koo EH, Nakagawa T, Masliah E, Ghosh A, Yates JR 3rd.

Cell Rep. 2017 Nov 28;21(9):2614-2627. doi: 10.1016/j.celrep.2017.11.009.

36.

Environmental enrichment and drug value: a behavioral economic analysis in male rats.

Yates JR, Bardo MT, Beckmann JS.

Addict Biol. 2017 Nov 27. doi: 10.1111/adb.12581. [Epub ahead of print]

PMID:
29178664
37.

S-Nitrosylation of PINK1 Attenuates PINK1/Parkin-Dependent Mitophagy in hiPSC-Based Parkinson's Disease Models.

Oh CK, Sultan A, Platzer J, Dolatabadi N, Soldner F, McClatchy DB, Diedrich JK, Yates JR 3rd, Ambasudhan R, Nakamura T, Jaenisch R, Lipton SA.

Cell Rep. 2017 Nov 21;21(8):2171-2182. doi: 10.1016/j.celrep.2017.10.068.

38.

Ist1 regulates ESCRT-III assembly and function during multivesicular endosome biogenesis in Caenorhabditis elegans embryos.

Frankel EB, Shankar R, Moresco JJ, Yates JR 3rd, Volkmann N, Audhya A.

Nat Commun. 2017 Nov 13;8(1):1439. doi: 10.1038/s41467-017-01636-8.

39.

A post-transcriptional program coordinated by CSDE1 prevents intrinsic neural differentiation of human embryonic stem cells.

Ju Lee H, Bartsch D, Xiao C, Guerrero S, Ahuja G, Schindler C, Moresco JJ, Yates JR 3rd, Gebauer F, Bazzi H, Dieterich C, Kurian L, Vilchez D.

Nat Commun. 2017 Nov 13;8(1):1456. doi: 10.1038/s41467-017-01744-5.

40.

Profiling of Protein O-GlcNAcylation in Murine CD8+ Effector- and Memory-like T Cells.

Lopez Aguilar A, Gao Y, Hou X, Lauvau G, Yates JR, Wu P.

ACS Chem Biol. 2017 Dec 15;12(12):3031-3038. doi: 10.1021/acschembio.7b00869. Epub 2017 Nov 10.

PMID:
29125738
41.

High infestation levels of Schizotetranychus oryzae severely affects rice metabolism.

Blasi ÉAR, Buffon G, Rativa AGS, Lopes MCB, Berger M, Santi L, Lavallée-Adam M, Yates JR 3rd, Schwambach J, Beys-da-Silva WO, Sperotto RA.

J Plant Physiol. 2017 Dec;219:100-111. doi: 10.1016/j.jplph.2017.10.005. Epub 2017 Oct 28.

PMID:
29096082
42.

Visualising crystal packing interactions in solid-state NMR: Concepts and applications.

Zilka M, Sturniolo S, Brown SP, Yates JR.

J Chem Phys. 2017 Oct 14;147(14):144203. doi: 10.1063/1.4996750.

PMID:
29031269
43.

Innovations in Publishing: Prepublication of Manuscripts on Preprint Servers.

Yates JR 3rd.

J Proteome Res. 2017 Nov 3;16(11):3953. doi: 10.1021/acs.jproteome.7b00674. Epub 2017 Oct 5. No abstract available.

PMID:
28980467
44.

Next Generation Proteomic Pipeline for Chromosome-Based Proteomic Research Using NeXtProt and GENCODE Databases.

Hwang H, Park GW, Park JY, Lee HK, Lee JY, Jeong JE, Park SR, Yates JR 3rd, Kwon KH, Park YM, Lee HJ, Paik YK, Kim JY, Yoo JS.

J Proteome Res. 2017 Dec 1;16(12):4425-4434. doi: 10.1021/acs.jproteome.7b00223. Epub 2017 Oct 13.

PMID:
28965411
45.

Effects of intra-accumbal administration of dopamine and ionotropic glutamate receptor drugs on delay discounting performance in rats.

Yates JR, Bardo MT.

Behav Neurosci. 2017 Oct;131(5):392-405. doi: 10.1037/bne0000214.

PMID:
28956947
46.

Ab initio random structure searching of organic molecular solids: assessment and validation against experimental data.

Zilka M, Dudenko DV, Hughes CE, Williams PA, Sturniolo S, Franks WT, Pickard CJ, Yates JR, Harris KDM, Brown SP.

Phys Chem Chem Phys. 2017 Oct 4;19(38):25949-25960. doi: 10.1039/c7cp04186a.

47.

Proteomic Analysis of Peripheral Blood Mononuclear Cells after a High-Fat, High-Carbohydrate Meal with Orange Juice.

Chaves DFS, Carvalho PC, Brasili E, Rogero MM, Hassimotto NA, Diedrich JK, Moresco JJ, Yates JR 3rd, Lajolo FM.

J Proteome Res. 2017 Nov 3;16(11):4086-4092. doi: 10.1021/acs.jproteome.7b00476.

PMID:
28927270
48.

Protein arginylation targets alpha synuclein, facilitates normal brain health, and prevents neurodegeneration.

Wang J, Han X, Leu NA, Sterling S, Kurosaka S, Fina M, Lee VM, Dong DW, Yates JR 3rd, Kashina A.

Sci Rep. 2017 Sep 12;7(1):11323. doi: 10.1038/s41598-017-11713-z.

49.

Quantitative Analysis of the Proteome Response to the Histone Deacetylase Inhibitor (HDACi) Vorinostat in Niemann-Pick Type C1 disease.

Subramanian K, Rauniyar N, Lavalleé-Adam M, Yates JR 3rd, Balch WE.

Mol Cell Proteomics. 2017 Nov;16(11):1938-1957. doi: 10.1074/mcp.M116.064949. Epub 2017 Aug 31.

PMID:
28860124
50.

TFG facilitates outer coat disassembly on COPII transport carriers to promote tethering and fusion with ER-Golgi intermediate compartments.

Hanna MG 4th, Block S, Frankel EB, Hou F, Johnson A, Yuan L, Knight G, Moresco JJ, Yates JR 3rd, Ashton R, Schekman R, Tong Y, Audhya A.

Proc Natl Acad Sci U S A. 2017 Sep 12;114(37):E7707-E7716. doi: 10.1073/pnas.1709120114. Epub 2017 Aug 29. Erratum in: Proc Natl Acad Sci U S A. 2017 Sep 25;:.

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