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PROTEOFORMER 2.0: Further Developments in the Ribosome Profiling-assisted Proteogenomic Hunt for New Proteoforms.

Verbruggen S, Ndah E, Van Criekinge W, Gessulat S, Kuster B, Wilhelm M, Van Damme P, Menschaert G.

Mol Cell Proteomics. 2019 Aug 9;18(8 suppl 1):S126-S140. doi: 10.1074/mcp.RA118.001218. Epub 2019 Apr 30.


Ablation of elongation factor 2 kinase enhances heat-shock protein 90 chaperone expression and protects cells under proteotoxic stress.

Xie J, Van Damme P, Fang D, Proud CG.

J Biol Chem. 2019 May 3;294(18):7169-7176. doi: 10.1074/jbc.AC119.008036. Epub 2019 Mar 19.


N-terminal Acetylation Levels Are Maintained During Acetyl-CoA Deficiency in Saccharomyces cerevisiae.

Varland S, Aksnes H, Kryuchkov F, Impens F, Van Haver D, Jonckheere V, Ziegler M, Gevaert K, Van Damme P, Arnesen T.

Mol Cell Proteomics. 2018 Dec;17(12):2309-2323. doi: 10.1074/mcp.RA118.000982. Epub 2018 Aug 27.


Cell-Intrinsic Control of Interneuron Migration Drives Cortical Morphogenesis.

Silva CG, Peyre E, Adhikari MH, Tielens S, Tanco S, Van Damme P, Magno L, Krusy N, Agirman G, Magiera MM, Kessaris N, Malgrange B, Andrieux A, Janke C, Nguyen L.

Cell. 2018 Feb 22;172(5):1063-1078.e19. doi: 10.1016/j.cell.2018.01.031.


Limitless translation limits translation.

Van Damme P.

Nature. 2018 Jan 18;553(7688):289-290. doi: 10.1038/d41586-017-08785-2. No abstract available.


Omics Assisted N-terminal Proteoform and Protein Expression Profiling On Methionine Aminopeptidase 1 (MetAP1) Deletion.

Jonckheere V, Fijałkowska D, Van Damme P.

Mol Cell Proteomics. 2018 Apr;17(4):694-708. doi: 10.1074/mcp.RA117.000360. Epub 2018 Jan 9.


N-terminal acetylation modulates Bax targeting to mitochondria.

Alves S, Neiri L, Chaves SR, Vieira S, Trindade D, Manon S, Dominguez V, Pintado B, Jonckheere V, Van Damme P, Silva RD, Aldabe R, Côrte-Real M.

Int J Biochem Cell Biol. 2018 Feb;95:35-42. doi: 10.1016/j.biocel.2017.12.004. Epub 2017 Dec 9.


Proteogenomics in Aid of Host-Pathogen Interaction Studies: A Bacterial Perspective.

Fels U, Gevaert K, Van Damme P.

Proteomes. 2017 Oct 11;5(4). pii: E26. doi: 10.3390/proteomes5040026. Review.


REPARATION: ribosome profiling assisted (re-)annotation of bacterial genomes.

Ndah E, Jonckheere V, Giess A, Valen E, Menschaert G, Van Damme P.

Nucleic Acids Res. 2017 Nov 16;45(20):e168. doi: 10.1093/nar/gkx758.


Ribosome signatures aid bacterial translation initiation site identification.

Giess A, Jonckheere V, Ndah E, Chyżyńska K, Van Damme P, Valen E.

BMC Biol. 2017 Aug 30;15(1):76. doi: 10.1186/s12915-017-0416-0.


eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs.

Fijalkowska D, Verbruggen S, Ndah E, Jonckheere V, Menschaert G, Van Damme P.

Nucleic Acids Res. 2017 Jul 27;45(13):7997-8013. doi: 10.1093/nar/gkx469.


Noncoding after All: Biases in Proteomics Data Do Not Explain Observed Absence of lncRNA Translation Products.

Verheggen K, Volders PJ, Mestdagh P, Menschaert G, Van Damme P, Gevaert K, Martens L, Vandesompele J.

J Proteome Res. 2017 Jul 7;16(7):2508-2515. doi: 10.1021/acs.jproteome.7b00085. Epub 2017 Jun 5.


N-terminal Proteomics Assisted Profiling of the Unexplored Translation Initiation Landscape in Arabidopsis thaliana.

Willems P, Ndah E, Jonckheere V, Stael S, Sticker A, Martens L, Van Breusegem F, Gevaert K, Van Damme P.

Mol Cell Proteomics. 2017 Jun;16(6):1064-1080. doi: 10.1074/mcp.M116.066662. Epub 2017 Apr 21.


Identification of Carboxypeptidase Substrates by C-Terminal COFRADIC.

Tanco S, Aviles FX, Gevaert K, Lorenzo J, Van Damme P.

Methods Mol Biol. 2017;1574:115-133. doi: 10.1007/978-1-4939-6850-3_9.


Protease Substrate Profiling by N-Terminal COFRADIC.

Staes A, Van Damme P, Timmerman E, Ruttens B, Stes E, Gevaert K, Impens F.

Methods Mol Biol. 2017;1574:51-76. doi: 10.1007/978-1-4939-6850-3_5.


A Role for Human N-alpha Acetyltransferase 30 (Naa30) in Maintaining Mitochondrial Integrity.

Van Damme P, Kalvik TV, Starheim KK, Jonckheere V, Myklebust LM, Menschaert G, Varhaug JE, Gevaert K, Arnesen T.

Mol Cell Proteomics. 2016 Nov;15(11):3361-3372. Epub 2016 Sep 30.


Positional proteomics reveals differences in N-terminal proteoform stability.

Gawron D, Ndah E, Gevaert K, Van Damme P.

Mol Syst Biol. 2016 Feb 18;12(2):858. doi: 10.15252/msb.20156662.


Absence of N-terminal acetyltransferase diversification during evolution of eukaryotic organisms.

Rathore OS, Faustino A, Prudêncio P, Van Damme P, Cox CJ, Martinho RG.

Sci Rep. 2016 Feb 10;6:21304. doi: 10.1038/srep21304.


OMICS views on protein N-terminal biology.

Van Damme P, Gevaert K.

Proteomics. 2015 Jul;15(14):2383-4. doi: 10.1002/pmic.201570123. No abstract available.


Proteomic Identification of Cysteine Cathepsin Substrates Shed from the Surface of Cancer Cells.

Sobotič B, Vizovišek M, Vidmar R, Van Damme P, Gocheva V, Joyce JA, Gevaert K, Turk V, Turk B, Fonović M.

Mol Cell Proteomics. 2015 Aug;14(8):2213-28. doi: 10.1074/mcp.M114.044628. Epub 2015 Jun 16.

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