Areal and laminar differentiation in the mouse neocortex using large scale gene expression data
Areal and laminar differentiation in the mouse neocortex using large scale gene expression data
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DOI：
10.1016/j.ymeth.2009.09.005
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发表时间：
2010-02-01
期刊：
影响因子：
4.8
通讯作者：
Ng, Lydia
中科院分区：
文献类型：
--
作者：
Hawrylycz, Mike;Bernard, Amy;Ng, Lydia
尽管哺乳动物皮层的细胞结构组织已被充分研究成不同的层，但识别区分皮层区域彼此的结构差异更具挑战性。利用磁共振成像或侵入性技术（如顺行或逆行追踪）对大型解剖结构进行定位是可能的，但识别基因表达结构的模式是有限的，因为基因产物不一定能识别特定区域的直接功能后果。在小鼠和人类皮层中，特定基因的表达通常在整个皮层中被识别，而表达的区域模式（当它存在时）最容易在逐层的基础上区分。由于皮质组织是由大量基因的表达来定义的，因此不能使用单个区域标记来识别单个（或组）结构。在这篇论文中，我们描述了一种在C57Bl/6J小鼠皮层中聚类基因表达相关谱的方法，以确定层和区域之间的大规模遗传关系。通过使用来自Allen Brain Atlas的原位杂交数据的解剖基因表达图谱（http://mouse.brain-map.org/agea/），我们发现在层流基础上聚集时，小鼠皮层中存在基于区域模式的一致表达组织。基于表面的映射和可视化技术被用作澄清这些关系的表示。(C) 2009爱思唯尔公司版权所有。
Although cytoarchitectonic organization of the mammalian cortex into different lamina has been well-studied, identifying the architectural differences that distinguish cortical areas from one another is more challenging. Localization of large anatomical structures is possible using magnetic resonance imaging or invasive techniques (such as anterograde or retrograde tracing), but identifying patterns in gene expression architecture is limited as gene products do not necessarily identify an immediate functional consequence of a specialized area. Expression of specific genes in the mouse and human cortex is most often identified across entire lamina, and areal patterning of expression (when it exists) is most easily differentiated on a layer-by-layer basis. Since cortical organization is defined by the expression of large sets of genes, the task of identifying individual (or groups Of Structures) cannot be done using individual areal markers. In this manuscript we describe a methodology for clustering gene expression correlation profiles in the C57Bl/6J mouse cortex to identify large-scale genetic relationships between layers and areas. By using the Anatomic Gene Expression Atlas (http://mouse.brain-map.org/agea/) derived from in situ hybridization data in the Allen Brain Atlas, we show that a consistent expression based organization of areal patterning in the mouse cortex exists when clustered on a laminar basis. Surface-based mapping and visualization techniques are used as a representation to clarify these relationships. (C) 2009 Elsevier Inc. All rights reserved.