Abstract:
:Glycosylation of proteins is involved in immune defense, cell-cell adhesion, cellular recognition and pathogen binding and is one of the most common and complex post-translational modifications. Science is still struggling to assign detailed mechanisms and functions to this form of conjugation. Even the structural analysis of glycoproteins-glycoproteomics-remains in its infancy due to the scarcity of high-throughput analytical platforms capable of determining glycopeptide composition and structure, especially platforms for complex biological mixtures. Glycopeptide composition and structure can be determined with high mass-accuracy mass spectrometry, particularly when combined with chromatographic separation, but the sheer volume of generated data necessitates computational software for interpretation. This review discusses the current state of glycopeptide assignment software-advances made to date and issues that remain to be addressed. The various software and algorithms developed so far provide important insights into glycoproteomics. However, there is currently no freely available software that can analyze spectral data in batch and unambiguously determine glycopeptide compositions for N- and O-linked glycopeptides from relevant biological sources such as human milk and serum. Few programs are capable of aiding in structural determination of the glycan component. To significantly advance the field of glycoproteomics, analytical software and algorithms are required that: (i) solve for both N- and O-linked glycopeptide compositions, structures and glycosites in biological mixtures; (ii) are high-throughput and process data in batches; (iii) can interpret mass spectral data from a variety of sources and (iv) are open source and freely available.
journal_name
Brief Bioinformjournal_title
Briefings in bioinformaticsauthors
Dallas DC,Martin WF,Hua S,German JBdoi
10.1093/bib/bbs045subject
Has Abstractpub_date
2013-05-01 00:00:00pages
361-74issue
3eissn
1467-5463issn
1477-4054pii
bbs045journal_volume
14pub_type
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journal_title:Briefings in bioinformatics
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journal_title:Briefings in bioinformatics
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journal_title:Briefings in bioinformatics
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
doi:10.1093/bib/bbw017
更新日期:2017-03-01 00:00:00
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
doi:10.1093/bib/bbv109
更新日期:2016-11-01 00:00:00
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pub_type: 历史文章,杂志文章,评审
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pub_type: 杂志文章,评审
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更新日期:2019-09-27 00:00:00
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journal_title:Briefings in bioinformatics
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doi:10.1093/bib/bbaa385
更新日期:2020-12-21 00:00:00
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journal_title:Briefings in bioinformatics
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更新日期:2020-12-01 00:00:00
abstract:UNLABELLED:So-called next-generation sequencing (NGS) has provided the ability to sequence on a massive scale at low cost, enabling biologists to perform powerful experiments and gain insight into biological processes. BamView has been developed to visualize and analyse sequence reads from NGS platforms, which have bee...
journal_title:Briefings in bioinformatics
pub_type: 杂志文章
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pub_type: 杂志文章,评审
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