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Spectral Prediction Features as a Solution for the Search Space Size Problem in Proteogenomics.
Mol Cell Proteomics. 2021;20:100076. doi: 10.1016/j.mcpro.2021.100076. Epub 2021 Apr 3.
Mol Cell Proteomics. 2021.
PMID: 33823297
Free PMC article.
sORFs.org: a repository of small ORFs identified by ribosome profiling.
Olexiouk V, Crappé J, Verbruggen S, Verhegen K, Martens L, Menschaert G.
Olexiouk V, et al. Among authors: verbruggen s.
Nucleic Acids Res. 2016 Jan 4;44(D1):D324-9. doi: 10.1093/nar/gkv1175. Epub 2015 Nov 2.
Nucleic Acids Res. 2016.
PMID: 26527729
Free PMC article.
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mQC: A post-mapping data exploration tool for ribosome profiling.
Verbruggen S, Menschaert G.
Verbruggen S, et al.
Comput Methods Programs Biomed. 2019 Nov;181:104806. doi: 10.1016/j.cmpb.2018.10.018. Epub 2018 Oct 28.
Comput Methods Programs Biomed. 2019.
PMID: 30401579
Free article.
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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.
Verbruggen S, et al.
Mol Cell Proteomics. 2019 Aug 9;18(8 suppl 1):S126-S140. doi: 10.1074/mcp.RA118.001218. Epub 2019 Apr 30.
Mol Cell Proteomics. 2019.
PMID: 31040227
Free PMC article.
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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.
Na CH, et al. Among authors: verbruggen s.
Genome Res. 2018 Jan;28(1):25-36. doi: 10.1101/gr.226050.117. Epub 2017 Nov 21.
Genome Res. 2018.
PMID: 29162641
Free PMC article.
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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.
Fijalkowska D, et al. Among authors: verbruggen s.
Nucleic Acids Res. 2017 Jul 27;45(13):7997-8013. doi: 10.1093/nar/gkx469.
Nucleic Acids Res. 2017.
PMID: 28541577
Free PMC article.
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