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本文引用的文献

1
CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure.CHESS 3:基于大规模表达数据、系统发育分析和蛋白质结构,改进和综合的人类基因和转录本目录。
Genome Biol. 2023 Oct 30;24(1):249. doi: 10.1186/s13059-023-03088-4.
2
Transcriptomics for Clinical and Experimental Biology Research: Hang on a Seq.临床与实验生物学研究中的转录组学:紧跟测序技术发展
Adv Genet (Hoboken). 2023 Jan 17;4(2):2200024. doi: 10.1002/ggn2.202200024. eCollection 2023 Jun.
3
High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq.高多重蛋白和全转录组共定位与空间 CITE-seq 在细胞分辨率下。
Nat Biotechnol. 2023 Oct;41(10):1405-1409. doi: 10.1038/s41587-023-01676-0. Epub 2023 Feb 23.
4
The first gapless, reference-quality, fully annotated genome from a Southern Han Chinese individual.首个无缺口、参考质量、完整注释的中国南方汉族个体基因组。
G3 (Bethesda). 2023 Mar 9;13(3). doi: 10.1093/g3journal/jkac321.
5
Long non-coding RNAs: definitions, functions, challenges and recommendations.长非编码 RNA:定义、功能、挑战与建议。
Nat Rev Mol Cell Biol. 2023 Jun;24(6):430-447. doi: 10.1038/s41580-022-00566-8. Epub 2023 Jan 3.
6
GENCODE: reference annotation for the human and mouse genomes in 2023.GENCODE:2023 年人类和小鼠基因组的参考注释。
Nucleic Acids Res. 2023 Jan 6;51(D1):D942-D949. doi: 10.1093/nar/gkac1071.
7
Developmental dynamics of RNA translation in the human brain.人类大脑中 RNA 翻译的发育动力学。
Nat Neurosci. 2022 Oct;25(10):1353-1365. doi: 10.1038/s41593-022-01164-9. Epub 2022 Sep 28.
8
Transcriptome variation in human tissues revealed by long-read sequencing.长读测序揭示人类组织中的转录组变异。
Nature. 2022 Aug;608(7922):353-359. doi: 10.1038/s41586-022-05035-y. Epub 2022 Aug 3.
9
Standardized annotation of translated open reading frames.翻译后的开放阅读框的标准化注释。
Nat Biotechnol. 2022 Jul;40(7):994-999. doi: 10.1038/s41587-022-01369-0.
10
The effects of sequencing depth on the assembly of coding and noncoding transcripts in the human genome.测序深度对人类基因组中编码和非编码转录本组装的影响。
BMC Genomics. 2022 Jul 4;23(1):487. doi: 10.1186/s12864-022-08717-z.

人类基因目录的现状。

The status of the human gene catalogue.

作者信息

Amaral Paulo, Carbonell-Sala Silvia, De La Vega Francisco M, Faial Tiago, Frankish Adam, Gingeras Thomas, Guigo Roderic, Harrow Jennifer L, Hatzigeorgiou Artemis G, Johnson Rory, Murphy Terence D, Pertea Mihaela, Pruitt Kim D, Pujar Shashikant, Takahashi Hazuki, Ulitsky Igor, Varabyou Ales, Wells Christine A, Yandell Mark, Carninci Piero, Salzberg Steven L

机构信息

INSPER Institute of Education and Research, São Paulo, SP, Brasil.

Centre for Genomic Regulation (CRG), Dr. Aiguader 88, 08003, Barcelona, Catalonia, Spain.

出版信息

ArXiv. 2023 Mar 24:arXiv:2303.13996v1.

PMID:36994150
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10055485/
Abstract

Scientists have been trying to identify all of the genes in the human genome since the initial draft of the genome was published in 2001. Over the intervening years, much progress has been made in identifying protein-coding genes, and the estimated number has shrunk to fewer than 20,000, although the number of distinct protein-coding isoforms has expanded dramatically. The invention of high-throughput RNA sequencing and other technological breakthroughs have led to an explosion in the number of reported non-coding RNA genes, although most of them do not yet have any known function. A combination of recent advances offers a path forward to identifying these functions and towards eventually completing the human gene catalogue. However, much work remains to be done before we have a universal annotation standard that includes all medically significant genes, maintains their relationships with different reference genomes, and describes clinically relevant genetic variants.

摘要

自人类基因组草图于2001年发布以来,科学家们一直在努力识别人类基因组中的所有基因。在这期间,在识别蛋白质编码基因方面取得了很大进展,估计数量已缩减至不到20,000个,尽管不同蛋白质编码异构体的数量已大幅增加。高通量RNA测序技术的发明和其他技术突破导致报告的非编码RNA基因数量激增,尽管其中大多数尚未发现任何已知功能。最近的一系列进展为识别这些功能以及最终完成人类基因目录提供了一条前进的道路。然而,在我们拥有一个通用注释标准之前,仍有许多工作要做,该标准应包括所有具有医学意义的基因,保持它们与不同参考基因组的关系,并描述临床相关的基因变异。