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Items: 1 to 50 of 1017

1.

Understanding molecular mechanisms of disease through spatial proteomics.

Pankow S, Martínez-Bartolomé S, Bamberger C, Yates JR.

Curr Opin Chem Biol. 2018 Oct 8;48:19-25. doi: 10.1016/j.cbpa.2018.09.016. [Epub ahead of print] Review.

PMID:
30308467
2.

Innovation: Structural Proteomics Goes Global.

Yates JR 3rd.

J Proteome Res. 2018 Oct 10. doi: 10.1021/acs.jproteome.8b00698. [Epub ahead of print] No abstract available.

PMID:
30303008
3.

Social reinstatement: a rat model of peer-induced relapse.

Weiss VG, Yates JR, Beckmann JS, Hammerslag LR, Bardo MT.

Psychopharmacology (Berl). 2018 Oct 6. doi: 10.1007/s00213-018-5048-8. [Epub ahead of print]

PMID:
30291403
4.

Proteomic analysis identifies highly expressed plasma membrane proteins for detection and therapeutic targeting of specific breast cancer subtypes.

Ziegler YS, Moresco JJ, Tu PG, Yates JR 3rd, Nardulli AM.

Clin Proteomics. 2018 Sep 19;15:30. doi: 10.1186/s12014-018-9206-0. eCollection 2018.

5.

Characterization of a novel antioxidant peptide from feather keratin hydrolysates.

Fontoura R, Daroit DJ, Corrêa APF, Moresco KS, Santi L, Beys-da-Silva WO, Yates JR 3rd, Moreira JCF, Brandelli A.

N Biotechnol. 2018 Sep 14. pii: S1871-6784(18)30154-7. doi: 10.1016/j.nbt.2018.09.003. [Epub ahead of print]

PMID:
30223040
6.

Proteins that control the geometry of microtubules at the ends of cilia.

Louka P, Vasudevan KK, Guha M, Joachimiak E, Wloga D, Tomasi RF, Baroud CN, Dupuis-Williams P, Galati DF, Pearson CG, Rice LM, Moresco JJ, Yates JR 3rd, Jiang YY, Lechtreck K, Dentler W, Gaertig J.

J Cell Biol. 2018 Sep 14. pii: jcb.201804141. doi: 10.1083/jcb.201804141. [Epub ahead of print]

PMID:
30217954
7.

MIEF1 Microprotein Regulates Mitochondrial Translation.

Rathore A, Chu Q, Tan D, Martinez TF, Donaldson CJ, Diedrich JK, Yates JR 3rd, Saghatelian A.

Biochemistry. 2018 Sep 25;57(38):5564-5575. doi: 10.1021/acs.biochem.8b00726. Epub 2018 Sep 14.

PMID:
30215512
8.

Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer.

Cao L, Pauthner M, Andrabi R, Rantalainen K, Berndsen Z, Diedrich JK, Menis S, Sok D, Bastidas R, Park SR, Delahunty CM, He L, Guenaga J, Wyatt RT, Schief WR, Ward AB, Yates JR 3rd, Burton DR, Paulson JC.

Nat Commun. 2018 Sep 12;9(1):3693. doi: 10.1038/s41467-018-06121-4.

9.

Defective RNA polymerase III is negatively regulated by the SUMO-Ubiquitin-Cdc48 pathway.

Wang Z, Wu C, Aslanian A, Yates JR 3rd, Hunter T.

Elife. 2018 Sep 7;7. pii: e35447. doi: 10.7554/eLife.35447.

10.

An NMR crystallography investigation of furosemide.

Zilka M, Yates JR, Brown SP.

Magn Reson Chem. 2018 Aug 23. doi: 10.1002/mrc.4789. [Epub ahead of print]

PMID:
30141257
11.

Regulated nuclear accumulation of a histone methyltransferase times the onset of heterochromatin formation in C. elegans embryos.

Mutlu B, Chen HM, Moresco JJ, Orelo BD, Yang B, Gaspar JM, Keppler-Ross S, Yates JR 3rd, Hall DH, Maine EM, Mango SE.

Sci Adv. 2018 Aug 22;4(8):eaat6224. doi: 10.1126/sciadv.aat6224. eCollection 2018 Aug.

12.

CBD-1 organizes two independent complexes required for eggshell vitelline layer formation and egg activation in C. elegans.

González DP, Lamb HV, Partida D, Wilson ZT, Harrison MC, Prieto JA, Moresco JJ, Diedrich JK, Yates JR 3rd, Olson SK.

Dev Biol. 2018 Oct 15;442(2):288-300. doi: 10.1016/j.ydbio.2018.08.005. Epub 2018 Aug 16.

13.

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.

14.

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
15.

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
16.

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
17.

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
18.

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 Aug;121:163-172. doi: 10.1016/j.yjmcc.2018.07.126. Epub 2018 Jul 19.

PMID:
30009778
19.

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
20.

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.

21.

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.

22.

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 Aug;560(7720):E35. doi: 10.1038/s41586-018-0271-3.

PMID:
29925958
23.

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;15(7):868-876. doi: 10.1080/15476286.2018.1467180. Epub 2018 Aug 2.

PMID:
29902117
24.

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.

25.

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.

26.

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.

27.

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
28.

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.

29.

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 Aug;560(7720):E35.

PMID:
29769718
30.

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
31.

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
32.

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
33.

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.

34.

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
35.

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
36.

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.

37.

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.

38.

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.

39.

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.

40.

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
41.

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.

42.

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.

43.

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
44.

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.

45.

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
46.

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
47.

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.

48.

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
49.

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.

50.

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.

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