CLAP

Companion datasets for "Denaturing purifications demonstrate that PRC2 and other widely-reported chromatin proteins do not appear to bind directly to RNA in vivo". The following data are organized by folders, in the Figures that they appear.

Tables containing various column metrics of CLIP and CLAP experiments (enrichment value, p-value, expression levels, and number of reads) for each detected 100-nucleotide RNA window. Tables labeled "PlusTag" or "MinusTag" indicate experiments in which a Halo-tagged protein was transfected into a human cell line (PlusTag, +tag) mixed with untransfected mouse cells or transfected into mouse cells and mixed with untransfected human cells (MinusTag, -tag); windows were computed over all annotated human RNAs. "Halo-" or "Spy-" prefixes are designated for proteins in which both HaloCLAP and SpyCLAP were performed (i.e., performed on either Halo-tagged or Spy-tagged proteins, respectively.) Unless otherwise noted, all other experiments were performed with HaloCLAP.

Full-length gel images of scanned phosphor screens are provided for all CLIP and CLAP-related experiments involving radiolabeling of RNA-protein complexes by 32P (Phosphorus-32).

本数据集为《变性纯化实验表明PRC2及其他广泛报道的染色质蛋白在体内似乎并不直接结合RNA》一文的配套数据集。本次数据集按其在论文插图中出现的分组文件夹进行组织。
包含针对每个检测到的100核苷酸RNA窗口的CLIP（Cross-Linking Immunoprecipitation，交联免疫沉淀）与CLAP（Cross-Linking Affinity Purification，交联亲和纯化）实验各项列指标表格，指标涵盖富集值、p值、表达水平以及测序读段数。标注为"PlusTag"或"MinusTag"的表格对应两类实验：一类是将带有Halo标签的蛋白转染人类细胞系（PlusTag，+tag）后与未转染的小鼠细胞混合，另一类是将蛋白转染小鼠细胞后与未转染的人类细胞混合（MinusTag，-tag）；分析窗口基于所有已注释的人类RNA序列划定。带有"Halo-"或"Spy-"前缀的实验，指同时完成了HaloCLAP与SpyCLAP检测的蛋白（即分别针对带有Halo标签或Spy标签的蛋白开展实验）。除另有说明外，其余所有实验均采用HaloCLAP方法。
所有涉及通过32P（磷-32）对RNA-蛋白复合物进行放射性标记的CLIP与CLAP相关实验，均提供了扫描磷屏得到的完整凝胶图像。