Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia [CUT&RUN]

This series CUT&RUN data aims to investigate epigenetic profiling of primary leukemia samples, cell lines, or cord blood CD34+ cells transduced with various NUP98 fusion oncoproteins. Overall design: NUP98 fusion oncoproteins binding was assessed by CUT&RUN using HA antibodies in cord blood CD34+ cell models with HA-tagged NUP98 fusion oncoproteins or N-terminus NUP98 antibody in primary samples and cell lines. Epigenetic status and binding of epigenetic regulators (KMT2A, menin) were also assessed. Peaks are called using MACS2 for narrow peaks and SICER for broad peaks. Differential epigenetic status was assessed using PBS (probability-being signals). *************************************************************** Raw files for human/patient samples were not submitted to GEO due to concerns about submitting personally identifiable sequence data for open access. ***************************************************************

本系列CUT&RUN数据集旨在探究转导了多种NUP98融合癌蛋白的原发性白血病样本、细胞系，或脐带血CD34+细胞的表观遗传谱。
总体实验设计：针对带有HA标签NUP98融合癌蛋白的脐带血CD34+细胞模型，采用HA抗体通过CUT&RUN技术检测NUP98融合癌蛋白的结合情况；在原发性样本与细胞系中，则使用N端NUP98抗体完成该检测。本研究同时还对表观遗传调控因子（KMT2A、menin）的表观遗传状态及其结合情况进行了评估。峰识别阶段分别使用MACS2进行窄峰调用、使用SICER进行宽峰调用。差异表观遗传状态通过PBS（信号存在概率，probability-being signals）进行评估。
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鉴于公开获取的序列数据可能涉及个人可识别信息，人类/患者样本的原始测序文件未提交至GEO（Gene Expression Omnibus）数据库。
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