HistoneDB 2.0: a histone database with variants-an integrated resource to explore histones and their variants
HistoneDB 2.0: a histone database with variants-an integrated resource to explore histones and their variants
复制标题
DOI：
10.1093/database/baw014
复制
发表时间：
2016-03-17
影响因子：
5.8
通讯作者：
Panchenko, Anna R.
中科院分区：
文献类型：
--
作者：
Draizen, Eli J.;Shaytan, Alexey K.;Panchenko, Anna R.
DNA压缩成染色质是真核生物的特征。核心（H2 A、H2 B、H3、H4）和接头（H1）组蛋白通过形成核小体和高级染色质聚集体负责这种压实。此外，组蛋白复杂地参与染色质功能，并通过特定的组蛋白变体和组蛋白翻译后修饰提供基因组动态调节的手段。HistoneDB 2.0 - with variants是一个全面的组蛋白序列数据库，按组蛋白类型和变体分类。数据库中的所有条目都补充了丰富的序列和结构注释，以及许多交互式工具，以探索和比较来自各种生物体的不同变体的序列。该数据库的核心是一组人工管理的组蛋白序列，分为30个不同的变体子集，并带有变体特异性注释。使用在策划集合上训练的算法，由来自非冗余蛋白质数据库的组蛋白序列的自动提取集合补充策划集合。交互式网站支持两个数据集的各种搜索策略：浏览系统发育树;按需生成多个序列比对与功能注释;组蛋白样序列的分类和浏览每个组蛋白变体的分类多样性。HistoneDB 2.0是组蛋白序列及其对染色质功能影响的交互式比较分析资源。
Compaction of DNA into chromatin is a characteristic feature of eukaryotic organisms. The core (H2A, H2B, H3, H4) and linker (H1) histone proteins are responsible for this compaction through the formation of nucleosomes and higher order chromatin aggregates. Moreover, histones are intricately involved in chromatin functioning and provide a means for genome dynamic regulation through specific histone variants and histone post-translational modifications. 'HistoneDB 2.0 - with variants' is a comprehensive database of histone protein sequences, classified by histone types and variants. All entries in the database are supplemented by rich sequence and structural annotations with many interactive tools to explore and compare sequences of different variants from various organisms. The core of the database is a manually curated set of histone sequences grouped into 30 different variant subsets with variant-specific annotations. The curated set is supplemented by an automatically extracted set of histone sequences from the non-redundant protein database using algorithms trained on the curated set. The interactive web site supports various searching strategies in both datasets: browsing of phylogenetic trees; on-demand generation of multiple sequence alignments with feature annotations; classification of histone-like sequences and browsing of the taxonomic diversity for every histone variant. HistoneDB 2.0 is a resource for the interactive comparative analysis of histone protein sequences and their implications for chromatin function.