Suppr超能文献

构建秀丽隐杆线虫的细胞与解剖本体论。

Building a cell and anatomy ontology of Caenorhabditis elegans.

作者信息

Lee Raymond Y N, Sternberg Paul W

机构信息

WormBase, California Institute of Technology, Pasadena, CA 91125, USA.

出版信息

Comp Funct Genomics. 2003;4(1):121-6. doi: 10.1002/cfg.248.

Abstract

We are endowed with a rich knowledge about Caenorhabditis elegans. Its stereotyped anatomy and development has stimulated research and resulted in the accumulation of cell-based information concerning gene expression, and the role of specific cells in developmental signalling and behavioural circuits. To make the information more accessible to sophisticated queries and automated retrieval systems, WormBase has begun to construct a C. elegans cell and anatomy ontology. Here we present our strategies and progress.

摘要

我们对秀丽隐杆线虫拥有丰富的知识。其固定的解剖结构和发育过程激发了研究,并积累了有关基因表达的基于细胞的信息,以及特定细胞在发育信号传导和行为回路中的作用。为了使这些信息更便于复杂查询和自动检索系统使用,WormBase已开始构建秀丽隐杆线虫细胞与解剖本体。在此,我们展示我们的策略和进展。

相似文献

1
Building a cell and anatomy ontology of Caenorhabditis elegans.
Comp Funct Genomics. 2003;4(1):121-6. doi: 10.1002/cfg.248.
2
Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes.
Methods Mol Biol. 2018;1757:399-470. doi: 10.1007/978-1-4939-7737-6_14.
3
Searching WormBase for information about Caenorhabditis elegans.
Curr Protoc Bioinformatics. 2006 Jul;Chapter 1:Unit 1.8. doi: 10.1002/0471250953.bi0108s14.
4
Textpresso: an ontology-based information retrieval and extraction system for biological literature.
PLoS Biol. 2004 Nov;2(11):e309. doi: 10.1371/journal.pbio.0020309. Epub 2004 Sep 21.
7
WormBase: a cross-species database for comparative genomics.
Nucleic Acids Res. 2003 Jan 1;31(1):133-7. doi: 10.1093/nar/gkg053.
8
An evidence-based approach to identify aging-related genes in Caenorhabditis elegans.
BMC Bioinformatics. 2015 Feb 7;16(1):40. doi: 10.1186/s12859-015-0469-4.
9
WormBase: a multi-species resource for nematode biology and genomics.
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D411-7. doi: 10.1093/nar/gkh066.
10
WormBase: methods for data mining and comparative genomics.
Methods Mol Biol. 2006;351:31-50. doi: 10.1385/1-59745-151-7:31.

引用本文的文献

1
Expanding automated gene summaries for and parasitic nematode species in WormBase.
MicroPubl Biol. 2024 Jul 16;2024. doi: 10.17912/micropub.biology.001267. eCollection 2024.
2
Widespread changes in gene expression accompany body size evolution in nematodes.
G3 (Bethesda). 2024 Aug 7;14(8). doi: 10.1093/g3journal/jkae110.
3
Widespread changes in gene expression accompany body size evolution in nematodes.
bioRxiv. 2023 Nov 2:2023.10.30.564729. doi: 10.1101/2023.10.30.564729.
4
Semantic representation of neural circuit knowledge in Caenorhabditis elegans.
Brain Inform. 2023 Nov 10;10(1):30. doi: 10.1186/s40708-023-00208-5.
5
Semantic Representation of Neural Circuit Knowledge in .
bioRxiv. 2023 Sep 26:2023.04.28.538760. doi: 10.1101/2023.04.28.538760.
6
The Gene Ontology knowledgebase in 2023.
Genetics. 2023 May 4;224(1). doi: 10.1093/genetics/iyad031.
7
Harmonizing model organism data in the Alliance of Genome Resources.
Genetics. 2022 Apr 4;220(4). doi: 10.1093/genetics/iyac022.
8
WormBase in 2022-data, processes, and tools for analyzing Caenorhabditis elegans.
Genetics. 2022 Apr 4;220(4). doi: 10.1093/genetics/iyac003.
9
Planarian Anatomy Ontology: a resource to connect data within and across experimental platforms.
Development. 2021 Aug 1;148(15). doi: 10.1242/dev.196097. Epub 2021 Aug 2.
10
The Ontology of the Amphioxus Anatomy and Life Cycle (AMPHX).
Front Cell Dev Biol. 2021 Apr 26;9:668025. doi: 10.3389/fcell.2021.668025. eCollection 2021.

本文引用的文献

2
Formation of the vulva in Caenorhabditis elegans: a paradigm for organogenesis.
Development. 1999 Feb;126(4):691-9. doi: 10.1242/dev.126.4.691.
3
Morphogenesis of the C. elegans hermaphrodite uterus.
Development. 1996 Nov;122(11):3617-26. doi: 10.1242/dev.122.11.3617.
4
Symmetry breakage in the development of one-armed gonads in nematodes.
Development. 1996 Jul;122(7):2129-42. doi: 10.1242/dev.122.7.2129.
6
The Caenorhabditis elegans male: postembryonic development of nongonadal structures.
Dev Biol. 1980 Aug;78(2):542-76. doi: 10.1016/0012-1606(80)90352-8.
8
The embryonic cell lineage of the nematode Caenorhabditis elegans.
Dev Biol. 1983 Nov;100(1):64-119. doi: 10.1016/0012-1606(83)90201-4.
10
Post-embryonic cell lineages of the nematode, Caenorhabditis elegans.
Dev Biol. 1977 Mar;56(1):110-56. doi: 10.1016/0012-1606(77)90158-0.

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验