CGDB: a database of circadian genes in eukaryotes.
CGDB: a database of circadian genes in eukaryotes.
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CGDB：真核生物昼夜节律基因数据库
DOI：
10.1093/nar/gkw1028
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发表时间：
2017-01-04
影响因子：
14.9
通讯作者：
Xue Y
中科院分区：
文献类型：
--
作者：
Li S;Shui K;Zhang Y;Lv Y;Deng W;Ullah S;Zhang L;Xue Y
我们报告了一个真核生物昼夜节律基因数据库（CGDB，http://cgdb.biocuckoo.org），包含68种动物、39种植物和41种真菌的约73000个昼夜节律相关基因。昼夜节律是地球上几乎所有生物体都存在的行为和生理过程的昼夜节律。昼夜节律系统的缺陷与许多疾病如癌症密切相关。虽然已经建立了几个数据库的节奏表达基因，一个全面的跨门循环基因的数据库仍然缺乏。从文献中，我们收集了1382个基因，其中转录水平振荡验证的方法，如RT-PCR，北方印迹和原位杂交。鉴于许多基因在生物体内的不同组织/细胞中表现出不同的振荡模式，我们已经包括了关于振荡的相位和振幅的信息，以及在其中鉴定出振荡的组织/细胞。使用这些良好的特征循环基因，我们进行了正交搜索，并确定了148个真核生物的145000个潜在的循环基因。鉴于大量的工作已经致力于通过转录组分析来识别循环基因，我们还将这些结果（总共超过26000个基因）纳入我们的数据库。
We report a database of circadian genes in eukaryotes (CGDB, http://cgdb.biocuckoo.org), containing ∼73 000 circadian-related genes in 68 animals, 39 plants and 41 fungi. Circadian rhythm is ∼24 h rhythm in behavioral and physiological processes that exists in almost all organisms on the earth. Defects in the circadian system are highly associated with a number of diseases such as cancers. Although several databases have been established for rhythmically expressed genes, a comprehensive database of cycling genes across phyla is still lacking. From the literature, we collected 1382 genes of which transcript level oscillations were validated using methods such as RT-PCR, northern blot and in situ hybridization. Given that many genes exhibit different oscillatory patterns in different tissues/cells within an organism, we have included information regarding the phase and amplitude of the oscillation, as well as the tissue/cells in which the oscillation was identified. Using these well characterized cycling genes, we have then conducted an orthologous search and identified ∼45 000 potential cycling genes from 148 eukaryotes. Given that significant effort has been devoted to identifying cycling genes by transcriptome profiling, we have also incorporated these results, a total of over 26 000 genes, into our database.
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影响因子：
14.9
作者：
Pizarro A;Hayer K;Lahens NF;Hogenesch JB
通讯作者：
Hogenesch JB
影响因子：
7.7
作者：
Pembroke, William G.;Babbs, Arran;Oliver, Peter L.
通讯作者：
Oliver, Peter L.
影响因子：
16
作者：
Aviram, Rona;Manella, Gal;Asher, Gad
通讯作者：
Asher, Gad
影响因子：
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作者：
Li S;Zhang L
通讯作者：
Zhang L
影响因子：
34.7
作者：
Cirelli, Chiara
通讯作者：
Cirelli, Chiara