Transcription profiling of embryonic kidneys from wild type and Hoxa11, Hoxd11 compound null mice throughout development to characterize Hoxa11/Hoxd11 mutant kidney development

Complete (whole) embryonic kidneys were dissected from wild type and Hoxa11, Hoxd11 compound null embryos throughout development. Targets from two biological replicates of each were generated and the expression profiles were determined using Affymetrix MOE430A and MOE430B arrays. Comparisons between normal and mutant and comparisons of development samples identified global patterns of gene regulation in kidney development Experiment Overall Design: Embryonic metanephric kidney samples throughout development were analyzed based on normalization to adult kidney samples. In addition, Hoxa11, Hoxd11 compound null embryonic kidneys were normalized to wild type embryonic controls. All developmental and adult stages were represented in biological (separate embryo/animal replicate). Normalized data files were not included because there appears to be a mismatch between the composite sequence identifiers in some of them and the array design selected.本研究在整个胚胎发育过程中，从野生型（wild type）与Hoxa11、Hoxd11双纯合缺失（compound null）胚胎中分离获取完整的胚胎肾脏。针对每组样本，通过两次生物学重复（biological replicate）样本构建检测靶点，并采用Affymetrix MOE430A与MOE430B基因芯片测定其基因表达谱。通过野生型与突变型样本间的比对，以及不同发育阶段样本间的比对，解析肾脏发育过程中基因调控的全局模式。 实验整体设计：本研究以成年肾脏样本为参照，对全发育阶段的胚胎后肾（metanephric kidney）样本开展归一化分析；同时将Hoxa11、Hoxd11双纯合缺失胚胎肾脏以野生型胚胎为对照进行归一化处理。所有发育阶段与成年阶段的样本均设置了生物学重复（即独立的胚胎/动物重复样本）。 由于部分归一化数据文件中的复合序列标识符（composite sequence identifiers）与所选芯片的设计存在不匹配问题，因此未将其纳入本数据集。