Abstract:
:Cell lines are widely used as in vitro models of tumorigenesis. However, an increasing number of researchers have found that cell lines differ from their sourced tumour samples after long-term cell culture. The application of unsuitable cell lines in experiments will affect the experimental accuracy and the treatment of patients. Therefore, it is imperative to identify optimal cell lines for each cancer type. Here, we review the methods used to evaluate cell lines since 2005. Furthermore, gene expression, copy number and mutation profiles from The Cancer Genome Atlas and the Cancer Cell Line Encyclopedia are used to calculate similarity between tumours and cell lines. Then, the ideal cell lines to use for experiments for eight types of cancers are found by combining the results with Gene Ontology functional similarity. After verification, the optimal cell lines have the same genomic characteristics as their homologous tumour samples. The contaminated cell lines identified in previous research are also determined to be unsuitable in vitro cancer models here. Moreover, our study suggests that some of the commonly used cell lines are not suitable cancer models. In summary, we provide a reference for ideal cell lines to use in in vitro experiments and contribute to improving the accuracy of future cancer research. Furthermore, this research provides a foundation for identifying more effective treatment strategies.
journal_name
Brief Bioinformjournal_title
Briefings in bioinformaticsauthors
Zhao N,Liu Y,Wei Y,Yan Z,Zhang Q,Wu C,Chang Z,Xu Ydoi
10.1093/bib/bbw082subject
Has Abstractpub_date
2017-05-01 00:00:00pages
515-529issue
3eissn
1467-5463issn
1477-4054pii
bbw082journal_volume
18pub_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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abstract::A key challenge of the post-genomic era is the identification of the function(s) of all the molecules in a given organism. Here, we review the status of sequence and structure-based approaches to protein function inference and ligand screening that can provide functional insights for a significant fraction of the appr...
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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
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更新日期:2016-11-01 00:00:00
abstract::Information Integrator is an extension to IBM's relational database DB2, which uses data federation to provide benefits to molecular biology researchers through two unique capabilities: increased flexibility in combining data from disparate sources, and SQL access to non-SQL data, easing the task of automating data an...
journal_title:Briefings in bioinformatics
pub_type: 杂志文章
doi:10.1093/bib/4.4.375
更新日期:2003-12-01 00:00:00
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章,评审
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更新日期:2018-09-28 00:00:00
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
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更新日期:2020-05-21 00:00:00
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pub_type: 杂志文章
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
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更新日期:2019-07-19 00:00:00
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
doi:10.1093/bib/bbaa425
更新日期:2021-01-30 00:00:00
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journal_title:Briefings in bioinformatics
pub_type: 杂志文章
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更新日期:2011-11-01 00:00:00
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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
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journal_title:Briefings in bioinformatics
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journal_title:Briefings in bioinformatics
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abstract:BACKGROUND:Whole genome sequencing (WGS) is increasingly used for Mycobacterium tuberculosis (Mtb) research. Countries with the highest tuberculosis (TB) burden face important challenges to integrate WGS into surveillance and research. METHODS:We assessed the global status of Mtb WGS and developed a 3-week training co...
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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