<br>iDog：犬科动物研究的多组学资源,Nucleic Acids Research

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iDog：犬科动物研究的多组学资源
Nucleic Acids Research ( IF 16.6 ) Pub Date : 2024-11-11 , DOI: 10.1093/nar/gkae1031
Yanhu Liu ₁ , Yibo Wang _{2,

3,

4} , Jiani Sun _{2,

3,

4,

5} , Demian Kong _{2,

3,

4} , Bowen Zhou ₁ , Mengting Ding ₁ , Yuyan Meng _{2,

3,

4,

5} , Guangya Duan _{2,

3,

4} , Ying Cui _{2,

3,

4} , Zhuojing Fan _{2,

3} , Ya-Ping Zhang ₁ , Wenming Zhao _{2,

3,

4} , Bixia Tang _{2,

3}

Affiliation

iDog （https://ngdc.cncb.ac.cn/idog/）是针对家犬（Canis lupus familiaris）和野生犬科动物的综合公共资源，旨在整合多组学数据，为全球犬类研究界提供数据服务。值得注意的是，iDog 2.0 的基因组样本增加了 15 倍，包括来自 1929 个现代样本的 2955 万个单核苷酸多态性（SNP）和 1654 万个插入/缺失（InDel），以及来自 111 个古代犬样本的 2909 万个 SNP。此外，已鉴定并整合了 43487 个品种特异性 SNP 和 530 个疾病/性状相关变异。该平台还包括来自 141 个 BioProjects 的数据，涉及基因表达分析，以及一个包含来自 105 057 个 Beagle 海马细胞数据的单细胞转录组模块。iDog 2.0 还包括一个 epignome 模块，用于评估 547 个样本的 DNA 甲基化模式和 87 个样本的染色质可及性，以分析基因表达调控。此外，它还提供了 897 种狗病、3207 个基因型-表型（G2P）对和 349 个狗病相关基因的表型数据，以及两个新构建的品种和疾病标准化本体。最后，添加了 13 个新的分析工具。鉴于这些增强功能，更新后的 iDog 2.0 是全球 cannie 研究界的宝贵资源。

"点击查看英文标题和摘要"

iDog: a multi-omics resource for canids study

iDog (https://ngdc.cncb.ac.cn/idog/) is a comprehensive public resource for domestic dogs (Canis lupus familiaris) and wild canids, designed to integrate multi-omics data and provide data services for the worldwide canine research community. Notably, iDog 2.0 features a 15-fold increase in genomic samples, including 29.55 million single nucleotide polymorphisms (SNPs) and 16.54 million insertions/deletions (InDels) from 1929 modern samples and 29.09 million SNPs from 111 ancient Canis samples. Additionally, 43487 breed-specific SNPs and 530 disease/trait-associated variants have been identified and integrated. The platform also includes data from 141 BioProjects involving gene expression analyses and a single-cell transcriptome module containing data from 105 057 Beagle hippocampus cells. iDog 2.0 also includes an epignome module that evaluates DNA methylation patterns across 547 samples and chromatin accessibility across 87 samples for the analysis of gene expression regulation. Additionally, it provies phenotypic data for 897 dog diseases, 3207 genotype-to-phenotype (G2P) pairs, and 349 dog disease-associated genes, along with two newly constructed ontologies for breed and disease standardization. Finally, 13 new analytical tools have been added. Given these enhancements, the updated iDog 2.0 is an invaluable resource for the global cannie research community.

更新日期：2024-11-11

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