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Items: 1 to 50 of 259

1.

Advances in Identifying and Characterizing the Human Proteome.

Paik YK, Overall CM, Corrales F, Deutsch EW, Lane L, Omenn GS.

J Proteome Res. 2019 Dec 6;18(12):4079-4084. doi: 10.1021/acs.jproteome.9b00745. No abstract available.

PMID:
31805768
2.

Intracellular Localization in Zebrafish Muscle and Conserved Sequence Features Suggest Roles for Gelatinase A Moonlighting in Sarcomere Maintenance.

Fallata AM, Wyatt RA, Levesque JM, Dufour A, Overall CM, Crawford BD.

Biomedicines. 2019 Nov 29;7(4). pii: E93. doi: 10.3390/biomedicines7040093.

3.

Moonlighting matrix metalloproteinase substrates: Enhancement of proinflammatory functions of extracellular tyrosyl-tRNA synthetase upon cleavage.

Jobin PG, Solis N, Machado Y, Bell PA, Rai SK, Kwon NH, Kim S, Overall CM, Butler GS.

J Biol Chem. 2019 Nov 26. pii: jbc.RA119.010486. doi: 10.1074/jbc.RA119.010486. [Epub ahead of print]

4.

Simplified high yield TAILS terminomics using a new HPG-ALD 800K-2000 polymer with precipitation.

Solis N, Parambath A, Abbina S, Kizhakkedathu J, Overall CM.

Methods Enzymol. 2019;626:429-446. doi: 10.1016/bs.mie.2019.07.030. Epub 2019 Aug 13.

PMID:
31606086
5.

Proteomic and N-Terminomic TAILS Analyses of Human Alveolar Bone Proteins: Improved Protein Extraction Methodology and LysargiNase Digestion Strategies Increase Proteome Coverage and Missing Protein Identification.

Bell PA, Solis N, Kizhakkedathu JN, Matthew I, Overall CM.

J Proteome Res. 2019 Dec 6;18(12):4167-4179. doi: 10.1021/acs.jproteome.9b00445. Epub 2019 Oct 25.

PMID:
31601107
6.

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0.

Deutsch EW, Lane L, Overall CM, Bandeira N, Baker MS, Pineau C, Moritz RL, Corrales F, Orchard S, Van Eyk JE, Paik YK, Weintraub ST, Vandenbrouck Y, Omenn GS.

J Proteome Res. 2019 Dec 6;18(12):4108-4116. doi: 10.1021/acs.jproteome.9b00542. Epub 2019 Oct 21.

PMID:
31599596
7.

Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project.

Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Pennington S, Snyder MP, Baker MS, Deutsch EW.

J Proteome Res. 2019 Dec 6;18(12):4098-4107. doi: 10.1021/acs.jproteome.9b00434. Epub 2019 Sep 13.

8.

Deep Profiling of the Cleavage Specificity and Human Substrates of Snake Venom Metalloprotease HF3 by Proteomic Identification of Cleavage Site Specificity (PICS) Using Proteome Derived Peptide Libraries and Terminal Amine Isotopic Labeling of Substrates (TAILS) N-Terminomics.

Zelanis A, Oliveira AK, Prudova A, Huesgen PF, Tashima AK, Kizhakkedathu J, Overall CM, Serrano SMT.

J Proteome Res. 2019 Sep 6;18(9):3419-3428. doi: 10.1021/acs.jproteome.9b00325. Epub 2019 Aug 8.

PMID:
31337208
9.

Matrix metalloproteinases inactivate the proinflammatory functions of secreted moonlighting tryptophanyl-tRNA synthetase.

Jobin PG, Solis N, Machado Y, Bell PA, Kwon NH, Kim S, Overall CM, Butler GS.

J Biol Chem. 2019 Aug 30;294(35):12866-12879. doi: 10.1074/jbc.RA119.009584. Epub 2019 Jul 19.

10.

Novel Human Aminopeptidase N Inhibitors: Discovery and Optimization of Subsite Binding Interactions.

Lee J, Vinh NB, Drinkwater N, Yang W, Kannan Sivaraman K, Schembri LS, Gazdik M, Grin PM, Butler GS, Overall CM, Charman SA, McGowan S, Scammells PJ.

J Med Chem. 2019 Aug 8;62(15):7185-7209. doi: 10.1021/acs.jmedchem.9b00757. Epub 2019 Jul 18.

PMID:
31251594
11.

Matrix metalloproteinases in the CNS: interferons get nervous.

Chopra S, Overall CM, Dufour A.

Cell Mol Life Sci. 2019 Aug;76(16):3083-3095. doi: 10.1007/s00018-019-03171-9. Epub 2019 Jun 4. Review.

PMID:
31165203
12.

Persistent Salmonella enterica Serovar Typhimurium Infection Induces Protease Expression During Intestinal Fibrosis.

Ehrhardt K, Steck N, Kappelhoff R, Stein S, Rieder F, Gordon IO, Boyle EC, Braubach P, Overall CM, Finlay BB, Grassl GA.

Inflamm Bowel Dis. 2019 May 9. pii: izz070. doi: 10.1093/ibd/izz070. [Epub ahead of print]

13.

Proteases and their inhibitors as prognostic factors for high-grade serous ovarian cancer.

Trudel D, Avarvarei LM, Orain M, Turcotte S, Plante M, Grégoire J, Kappelhoff R, Labbé DP, Bachvarov D, Têtu B, Overall CM, Bairati I.

Pathol Res Pract. 2019 Jun;215(6):152369. doi: 10.1016/j.prp.2019.02.019. Epub 2019 Mar 2.

PMID:
30987833
14.

Toward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical Methods.

Paik YK, Overall CM, Corrales F, Deutsch EW, Lane L, Omenn GS.

J Proteome Res. 2018 Dec 7;17(12):4023-4030. doi: 10.1021/acs.jproteome.8b00885. No abstract available.

15.

An allosteric MALT1 inhibitor is a molecular corrector rescuing function in an immunodeficient patient.

Quancard J, Klein T, Fung SY, Renatus M, Hughes N, Israël L, Priatel JJ, Kang S, Blank MA, Viner RI, Blank J, Schlapbach A, Erbel P, Kizhakkedathu J, Villard F, Hersperger R, Turvey SE, Eder J, Bornancin F, Overall CM.

Nat Chem Biol. 2019 Mar;15(3):304-313. doi: 10.1038/s41589-018-0222-1. Epub 2019 Jan 28.

PMID:
30692685
16.

Precision De Novo Peptide Sequencing Using Mirror Proteases of Ac-LysargiNase and Trypsin for Large-scale Proteomics.

Yang H, Li YC, Zhao MZ, Wu FL, Wang X, Xiao WD, Wang YH, Zhang JL, Wang FQ, Xu F, Zeng WF, Overall CM, He SM, Chi H, Xu P.

Mol Cell Proteomics. 2019 Apr;18(4):773-785. doi: 10.1074/mcp.TIR118.000918. Epub 2019 Jan 8.

PMID:
30622160
17.

Hydroxamic Acid Inhibitors Provide Cross-Species Inhibition of Plasmodium M1 and M17 Aminopeptidases.

Vinh NB, Drinkwater N, Malcolm TR, Kassiou M, Lucantoni L, Grin PM, Butler GS, Duffy S, Overall CM, Avery VM, Scammells PJ, McGowan S.

J Med Chem. 2019 Jan 24;62(2):622-640. doi: 10.1021/acs.jmedchem.8b01310. Epub 2019 Jan 4.

PMID:
30537832
18.

Neutrophil elastase-cleaved corticosteroid-binding globulin is absent in human plasma.

Hill LA, Vassiliadi DA, Dimopoulou I, Anderson AJ, Boyle LD, Kilgour AHM, Stimson RH, Machado Y, Overall CM, Walker BR, Lewis JG, Hammond GL.

J Endocrinol. 2019 Jan 1;240(1):27-39. doi: 10.1530/JOE-18-0479.

19.

Global Profiling of Proteolysis from the Mitochondrial Amino Terminome during Early Intrinsic Apoptosis Prior to Caspase-3 Activation.

Marshall NC, Klein T, Thejoe M, von Krosigk N, Kizhakkedathu J, Finlay BB, Overall CM.

J Proteome Res. 2018 Dec 7;17(12):4279-4296. doi: 10.1021/acs.jproteome.8b00675. Epub 2018 Oct 29.

PMID:
30371095
20.

Highlight: Frontiers in Proteolysis.

Lemieux MJ, Denault JB, Overall CM.

Biol Chem. 2018 Nov 27;399(12):1351. doi: 10.1515/hsz-2018-0401. No abstract available.

PMID:
30352023
21.

TAILS proteomics reveals dynamic changes in airway proteolysis controlling protease activity and innate immunity during COPD exacerbations.

Mallia-Milanes B, Dufour A, Philp C, Solis N, Klein T, Fischer M, Bolton CE, Shapiro S, Overall CM, Johnson SR.

Am J Physiol Lung Cell Mol Physiol. 2018 Dec 1;315(6):L1003-L1014. doi: 10.1152/ajplung.00175.2018. Epub 2018 Oct 4.

22.

Launching the C-HPP neXt-CP50 Pilot Project for Functional Characterization of Identified Proteins with No Known Function.

Paik YK, Lane L, Kawamura T, Chen YJ, Cho JY, LaBaer J, Yoo JS, Domont G, Corrales F, Omenn GS, Archakov A, Encarnación-Guevara S, Lui S, Salekdeh GH, Cho JY, Kim CY, Overall CM.

J Proteome Res. 2018 Dec 7;17(12):4042-4050. doi: 10.1021/acs.jproteome.8b00383. Epub 2018 Nov 29.

23.

Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project.

Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Snyder M, Baker MS, Deutsch EW.

J Proteome Res. 2018 Dec 7;17(12):4031-4041. doi: 10.1021/acs.jproteome.8b00441. Epub 2018 Aug 23. Review.

24.

Collagenase-2 deficiency or inhibition impairs experimental autoimmune encephalomyelitis in mice.

Folgueras AR, Fueyo A, García-Suárez O, Cox J, Astudillo A, Tortorella P, Campestre C, Gutiérrez-Fernández A, Fanjul-Fernández M, Pennington CJ, Edwards DR, Overall CM, López-Otín C.

J Biol Chem. 2018 Jul 27;293(30):11968-11969. doi: 10.1074/jbc.AAC118.004703. No abstract available.

25.

Granzyme B is elevated in autoimmune blistering diseases and cleaves key anchoring proteins of the dermal-epidermal junction.

Russo V, Klein T, Lim DJ, Solis N, Machado Y, Hiroyasu S, Nabai L, Shen Y, Zeglinski MR, Zhao H, Oram CP, Lennox PA, Van Laeken N, Carr NJ, Crawford RI, Franzke CW, Overall CM, Granville DJ.

Sci Rep. 2018 Jun 26;8(1):9690. doi: 10.1038/s41598-018-28070-0.

26.

C-terminal truncation of IFN-γ inhibits proinflammatory macrophage responses and is deficient in autoimmune disease.

Dufour A, Bellac CL, Eckhard U, Solis N, Klein T, Kappelhoff R, Fortelny N, Jobin P, Rozmus J, Mark J, Pavlidis P, Dive V, Barbour SJ, Overall CM.

Nat Commun. 2018 Jun 20;9(1):2416. doi: 10.1038/s41467-018-04717-4.

27.

Melanocyte development in the mouse tail epidermis requires the Adamts9 metalloproteinase.

Tharmarajah G, Eckhard U, Jain F, Marino G, Prudova A, Urtatiz O, Fuchs H, de Angelis MH, Overall CM, Van Raamsdonk CD.

Pigment Cell Melanoma Res. 2018 Nov;31(6):693-707. doi: 10.1111/pcmr.12711. Epub 2018 Jun 5.

PMID:
29781574
28.

TAILS N-terminomics and proteomics reveal complex regulation of proteolytic cleavage by O-glycosylation.

King SL, Goth CK, Eckhard U, Joshi HJ, Haue AD, Vakhrushev SY, Schjoldager KT, Overall CM, Wandall HH.

J Biol Chem. 2018 May 18;293(20):7629-7644. doi: 10.1074/jbc.RA118.001978. Epub 2018 Mar 28.

29.

N-Terminomics TAILS Identifies Host Cell Substrates of Poliovirus and Coxsackievirus B3 3C Proteinases That Modulate Virus Infection.

Jagdeo JM, Dufour A, Klein T, Solis N, Kleifeld O, Kizhakkedathu J, Luo H, Overall CM, Jan E.

J Virol. 2018 Mar 28;92(8). pii: e02211-17. doi: 10.1128/JVI.02211-17. Print 2018 Apr 15.

30.

Identification of Protease Cleavage Sites and Substrates in Cancer by Carboxy-TAILS (C-TAILS).

Solis N, Overall CM.

Methods Mol Biol. 2018;1731:15-28. doi: 10.1007/978-1-4939-7595-2_2.

PMID:
29318539
31.

Proteolytic Cleavage-Mechanisms, Function, and "Omic" Approaches for a Near-Ubiquitous Posttranslational Modification.

Klein T, Eckhard U, Dufour A, Solis N, Overall CM.

Chem Rev. 2018 Feb 14;118(3):1137-1168. doi: 10.1021/acs.chemrev.7b00120. Epub 2017 Dec 21. Review.

PMID:
29265812
32.

Progress and Future Direction of Chromosome-Centric Human Proteome Project.

Paik YK, Overall CM, Deutsch EW, Van Eyk JE, Omenn GS.

J Proteome Res. 2017 Dec 1;16(12):4253-4258. doi: 10.1021/acs.jproteome.7b00734.

PMID:
29191025
33.

Discovery of noncanonical translation initiation sites through mass spectrometric analysis of protein N termini.

Na CH, Barbhuiya MA, Kim MS, Verbruggen S, Eacker SM, Pletnikova O, Troncoso JC, Halushka MK, Menschaert G, Overall CM, Pandey A.

Genome Res. 2018 Jan;28(1):25-36. doi: 10.1101/gr.226050.117. Epub 2017 Nov 21.

34.

Advances in the Chromosome-Centric Human Proteome Project: looking to the future.

Paik YK, Omenn GS, Hancock WS, Lane L, Overall CM.

Expert Rev Proteomics. 2017 Dec;14(12):1059-1071. doi: 10.1080/14789450.2017.1394189. Epub 2017 Nov 10. Review.

35.

The Human Odontoblast Cell Layer and Dental Pulp Proteomes and N-Terminomes.

Abbey SR, Eckhard U, Solis N, Marino G, Matthew I, Overall CM.

J Dent Res. 2018 Mar;97(3):338-346. doi: 10.1177/0022034517736054. Epub 2017 Oct 16.

PMID:
29035686
36.

The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays.

Schwenk JM, Omenn GS, Sun Z, Campbell DS, Baker MS, Overall CM, Aebersold R, Moritz RL, Deutsch EW.

J Proteome Res. 2017 Dec 1;16(12):4299-4310. doi: 10.1021/acs.jproteome.7b00467. Epub 2017 Oct 10.

37.

Discovery of a proteolytic flagellin family in diverse bacterial phyla that assembles enzymatically active flagella.

Eckhard U, Bandukwala H, Mansfield MJ, Marino G, Cheng J, Wallace I, Holyoak T, Charles TC, Austin J, Overall CM, Doxey AC.

Nat Commun. 2017 Sep 12;8(1):521. doi: 10.1038/s41467-017-00599-0.

38.

Progress on the HUPO Draft Human Proteome: 2017 Metrics of the Human Proteome Project.

Omenn GS, Lane L, Lundberg EK, Overall CM, Deutsch EW.

J Proteome Res. 2017 Dec 1;16(12):4281-4287. doi: 10.1021/acs.jproteome.7b00375. Epub 2017 Oct 9.

39.

Overview of transcriptomic analysis of all human proteases, non-proteolytic homologs and inhibitors: Organ, tissue and ovarian cancer cell line expression profiling of the human protease degradome by the CLIP-CHIP™ DNA microarray.

Kappelhoff R, Puente XS, Wilson CH, Seth A, López-Otín C, Overall CM.

Biochim Biophys Acta Mol Cell Res. 2017 Nov;1864(11 Pt B):2210-2219. doi: 10.1016/j.bbamcr.2017.08.004. Epub 2017 Aug 7. Review.

40.

Can we predict protein from mRNA levels?

Fortelny N, Overall CM, Pavlidis P, Freue GVC.

Nature. 2017 Jul 26;547(7664):E19-E20. doi: 10.1038/nature22293. No abstract available.

PMID:
28748932
41.

Aging-associated modifications of collagen affect its degradation by matrix metalloproteinases.

Panwar P, Butler GS, Jamroz A, Azizi P, Overall CM, Brömme D.

Matrix Biol. 2018 Jan;65:30-44. doi: 10.1016/j.matbio.2017.06.004. Epub 2017 Jun 17.

PMID:
28634008
42.

New intracellular activities of matrix metalloproteinases shine in the moonlight.

Jobin PG, Butler GS, Overall CM.

Biochim Biophys Acta Mol Cell Res. 2017 Nov;1864(11 Pt A):2043-2055. doi: 10.1016/j.bbamcr.2017.05.013. Epub 2017 May 16. Review.

43.

Protease-Inhibitor Interaction Predictions: Lessons on the Complexity of Protein-Protein Interactions.

Fortelny N, Butler GS, Overall CM, Pavlidis P.

Mol Cell Proteomics. 2017 Jun;16(6):1038-1051. doi: 10.1074/mcp.M116.065706. Epub 2017 Apr 6.

44.

Highly sensitive and adaptable fluorescence-quenched pair discloses the substrate specificity profiles in diverse protease families.

Poreba M, Szalek A, Rut W, Kasperkiewicz P, Rutkowska-Wlodarczyk I, Snipas SJ, Itoh Y, Turk D, Turk B, Overall CM, Kaczmarek L, Salvesen GS, Drag M.

Sci Rep. 2017 Feb 23;7:43135. doi: 10.1038/srep43135.

45.

Protean proteases: at the cutting edge of lung diseases.

Taggart C, Mall MA, Lalmanach G, Cataldo D, Ludwig A, Janciauskiene S, Heath N, Meiners S, Overall CM, Schultz C, Turk B, Borensztajn KS.

Eur Respir J. 2017 Feb 8;49(2). pii: 1501200. doi: 10.1183/13993003.01200-2015. Print 2017 Feb. Review.

46.

Sharpening Host Defenses during Infection: Proteases Cut to the Chase.

Marshall NC, Finlay BB, Overall CM.

Mol Cell Proteomics. 2017 Apr;16(4 suppl 1):S161-S171. doi: 10.1074/mcp.O116.066456. Epub 2017 Feb 8. Review.

47.

Site-specific O-Glycosylation by Polypeptide N-Acetylgalactosaminyltransferase 2 (GalNAc-transferase T2) Co-regulates β1-Adrenergic Receptor N-terminal Cleavage.

Goth CK, Tuhkanen HE, Khan H, Lackman JJ, Wang S, Narimatsu Y, Hansen LH, Overall CM, Clausen H, Schjoldager KT, Petäjä-Repo UE.

J Biol Chem. 2017 Mar 17;292(11):4714-4726. doi: 10.1074/jbc.M116.730614. Epub 2017 Feb 6.

48.

Opposite Electron-Transfer Dissociation and Higher-Energy Collisional Dissociation Fragmentation Characteristics of Proteolytic K/R(X)n and (X)nK/R Peptides Provide Benefits for Peptide Sequencing in Proteomics and Phosphoproteomics.

Tsiatsiani L, Giansanti P, Scheltema RA, van den Toorn H, Overall CM, Altelaar AF, Heck AJ.

J Proteome Res. 2017 Feb 3;16(2):852-861. doi: 10.1021/acs.jproteome.6b00825. Epub 2016 Dec 2.

PMID:
28111955
49.

Interactome disassembly during apoptosis occurs independent of caspase cleavage.

Scott NE, Rogers LD, Prudova A, Brown NF, Fortelny N, Overall CM, Foster LJ.

Mol Syst Biol. 2017 Jan 12;13(1):906. doi: 10.15252/msb.20167067.

50.

Progress in the Chromosome-Centric Human Proteome Project as Highlighted in the Annual Special Issue IV.

Paik YK, Overall CM, Deutsch EW, Hancock WS, Omenn GS.

J Proteome Res. 2016 Nov 4;15(11):3945-3950. No abstract available.

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