eXPRESSION: An in silico tool to predict patterns of gene expression
eXPRESSION: An in silico tool to predict patterns of gene expression
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DOI：
10.1016/j.modgep.2005.03.003
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发表时间：
2005-06-01
影响因子：
1.2
通讯作者：
Graff, J
中科院分区：
文献类型：
--
作者：
Ferguson, DA;Chiang, JTA;Graff, J
在胚胎学研究中，表达模式分析是特别重要的，因为具有时间和空间限制表达的基因不仅作为谱系标记是必需的，而且通常是形成特定命运的原因。此外，分子在何处表达可以相当揭示其内源性功能。我们提出了一个基因发现工具，称为eXPRESSION，利用公共EST数据库来识别基因匹配所需的转录谱。我们首先测试并验证了eXPRESSION在成年小鼠中发现组织特异性基因的能力;经验以及DNA微阵列和RT-PCR。这些研究表明，eXPRESSION预测可以识别在成年小鼠组织中特异性表达的基因。接下来，我们开发了一种新的搜索策略来寻找在发育中的小鼠胚胎的特定区域或组织中表达的基因。有了这些工具，我们确定了几个新的基因，表现出神经特异性或神经富集的表达模式在小鼠发育。数据表明，eXPRESSION具有广泛的适用性，可用于以最小的成本和努力鉴定成人和胚胎组织或器官特异性基因。(c)2005 Elsevier B. V.保留所有权利。
In embryological studies, expression pattern analyses are of special importance since genes that have temporally and spatially restricted expression are not only essential as lineage markers but are often causative in formation of specific fates. Further, where a molecule is expressed can be quite revealing in regard to its endogenous function. We present a gene discovery tool, termed eXPRESSION, that utilizes the public EST databases to identify genes matching desired transcriptional profiles. We first tested and validated the ability of eXPRESSION to discover tissue-specific genes in the adult mouse; empirically as well as with DNA microarrays and RT-PCRs. These studies showed that eXPRESSION predictions could identify genes that are specifically expressed in adult mouse tissues. Next, we developed a novel search strategy to find genes that are expressed in specific regions or tissues of the developing mouse embryo. With these tools, we identified several novel genes that exhibited a neural-specific or neural-enriched expression pattern during murine development. The data show that eXPRESSION is widely applicable and may be used to identify both adult and embryonic tissue- or organ-specific genes with minimal cost and effort. (c) 2005 Elsevier B.V. All rights reserved.