A general mechanism for transcription regulation by Oct1 and Oct4 in response to genotoxic and oxidative stress. Homo sapiens

We identify inducible binding of the transcription factor Oct1 to numerous targets following exposure to hydrogen peroxide. Overall design: Oct1 bound ChIP fragments were sequenced in the presence and absence of H2O2 exposure using HeLa cells. Both 26 and 36bp reads were generated. Each processed file contains a list of genomic regions (NCBI 36.1, H_sapiens_Mar_2006, hg18) enriched for Oct1 binding. These files were generated by running the EnrichedRegionMaker on ScanSeqs window scored data, see http://useq.sourceforge.net/ . Adjacent and overlapping windows with a q-value FDR of 0.0001 were joined into larger enriched regions. The best scoring window's scores are used to represent the enriched region.

本研究鉴定了转录因子Oct1在暴露于过氧化氢（hydrogen peroxide）后，与众多靶位点产生的诱导性结合。实验设计概述：利用海拉（HeLa）细胞，在有无过氧化氢（H₂O₂）暴露的条件下，对Oct1结合的染色质免疫沉淀（Chromatin Immunoprecipitation, ChIP）片段进行测序，共获得26 bp与36 bp两种读长的测序读段。每份处理后的文件均包含一系列富集Oct1结合位点的基因组区域，对应人类参考基因组版本为NCBI 36.1、H_sapiens_Mar_2006（即hg18）。上述文件通过对ScanSeqs窗口评分数据运行EnrichedRegionMaker工具生成，详细信息可访问http://useq.sourceforge.net/查阅。将q值错误发现率（False Discovery Rate, FDR）为0.0001的相邻且重叠的窗口合并为更大的富集区域，并以得分最高的窗口的评分作为该富集区域的代表值。