iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture
iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture
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DOI：
10.1038/s41467-019-09616-w
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发表时间：
2019-04-09
影响因子：
16.6
通讯作者：
Bienko, Magda
中科院分区：
文献类型：
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作者：
Gelali, Eleni;Girelli, Gabriele;Bienko, Magda
DNA荧光原位杂交（DNA FISH）是研究单细胞染色体组织的一种有效方法。目前，缺乏免费的DNA FISH探针资源和易于应用的探针设计工具。在这里，我们描述了iFISH，这是一个开源存储库，目前包括380个DNA FISH探针，针对人类常染色体和X染色体上的多个位点，以及一个优化设计的寡核苷酸全基因组数据库和一个可免费访问的网络界面（http://ifish4u.org），可用于设计DNA FISH探针。我们单独验证了153个探针，并利用我们的探针库来量化多个异源染色体对之间的混杂程度，结果显示，与成纤维细胞相比，人类胚胎干细胞的混杂程度要高得多。总之，FISH是一个多功能和可扩展的资源，可以极大地促进DNA FISH在研究和诊断中的应用。
DNA fluorescence in situ hybridization (DNA FISH) is a powerful method to study chromosomal organization in single cells. At present, there is a lack of free resources of DNA FISH probes and probe design tools which can be readily applied. Here, we describe iFISH, an open-source repository currently comprising 380 DNA FISH probes targeting multiple loci on the human autosomes and chromosome X, as well as a genome-wide database of optimally designed oligonucleotides and a freely accessible web interface (http://ifish4u.org) that can be used to design DNA FISH probes. We individually validate 153 probes and take advantage of our probe repository to quantify the extent of intermingling between multiple heterologous chromosome pairs, showing a much higher extent of intermingling in human embryonic stem cells compared to fibroblasts. In conclusion, iFISH is a versatile and expandable resource, which can greatly facilitate the use of DNA FISH in research and diagnostics.