Identification of human gene research articles with wrongly identified nucleotide sequences.
Identification of human gene research articles with wrongly identified nucleotide sequences.
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DOI：
10.26508/lsa.202101203
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发表时间：
2022-04
影响因子：
4.4
通讯作者：
Byrne JA
中科院分区：
文献类型：
--
作者：
Park Y;West RA;Pathmendra P;Favier B;Stoeger T;Capes-Davis A;Cabanac G;Labbé C;Byrne JA
本研究描述了对目标和期刊语料库进行 Seek & Blastn 分析，并通过手动结果验证来识别带有错误识别的核苷酸序列试剂的人类基因研究文章。核苷酸序列试剂是分子技术的基础，已在数十万种出版物中得到应用。我们之前曾在人类研究出版物中报告过错误识别的核苷酸序列试剂，并描述了一种半自动筛选工具 Seek & Blastn 来对其声称的状态进行事实核查。我们应用 Seek & Blastn 筛选了五个文献语料库中的超过 11,700 篇出版物，包括 2007 年至 2018 年《Gene》中的所有原始出版物以及 2014 年至 2018 年《Oncology Reports》中的所有原始开放获取出版物。在手动检查超过 3,400 篇人类研究文章的 Seek & Blastn 输出后，我们在 78 种期刊中识别出 712 篇文章，这些文章至少描述了一种错误识别的核苷酸序列。验证了超过 13,700 个序列的声称身份，突出了 1,535 个错误识别的序列，其中大多数声称是用于分析 365 个人类蛋白质编码基因和 120 个非编码 RNA 的靶向试剂。这 712 篇有问题的文章已获得超过 17,000 次引用，其中包括人体临床试验的引用。鉴于我们估计大约四分之一的有问题的文章可能会误导人类疗法的未来发展，因此需要采取紧急措施来解决不可靠的基因研究文章。
This study describes Seek & Blastn analysis of targeted and journal corpora with manual results verification to identify human gene research articles with wrongly identified nucleotide sequence reagents. Nucleotide sequence reagents underpin molecular techniques that have been applied across hundreds of thousands of publications. We have previously reported wrongly identified nucleotide sequence reagents in human research publications and described a semi-automated screening tool Seek & Blastn to fact-check their claimed status. We applied Seek & Blastn to screen >11,700 publications across five literature corpora, including all original publications in Gene from 2007 to 2018 and all original open-access publications in Oncology Reports from 2014 to 2018. After manually checking Seek & Blastn outputs for >3,400 human research articles, we identified 712 articles across 78 journals that described at least one wrongly identified nucleotide sequence. Verifying the claimed identities of >13,700 sequences highlighted 1,535 wrongly identified sequences, most of which were claimed targeting reagents for the analysis of 365 human protein-coding genes and 120 non-coding RNAs. The 712 problematic articles have received >17,000 citations, including citations by human clinical trials. Given our estimate that approximately one-quarter of problematic articles may misinform the future development of human therapies, urgent measures are required to address unreliable gene research articles.