Additional file 4: Table S4. of Epigenomic and metabolic responses of hypothalamic POMC neurons to gestational nicotine exposure in adult offspring

Co-expressed lncRNAs and protein-coding genes in cis. Co-expression of lncRNAs (columns A and B) with their nearest (adjacent or overlapping) protein-coding gene (column D) was determined by the Pearson’s correlation coefficient r (column F). An r value > 0.602 or < −0.602 was regarded as significant (p < 0.05, two-tailed t test, n = 11). Co-expressed lncRNA/protein-coding gene pairs are ranked by the absolute r value. A positive r value indicates positive correlation and a negative r value indicates negative correlation (column G). The distance between lncRNA and protein-coding gene (column H) was defined as the distance between their nearest borders irrespective of strand orientation (columns C, E) and was set 0 for overlapping lncRNAs and protein-coding genes. LncRNAs were positioned upstream, overlapping, and/or downstream of the coding gene body (column I). A number of lncRNAs overlapped the coding gene promoter (column J) defined as the 10 kb upstream sequence of a gene. Only lncRNA and coding genes with average expression levels > 1 CPM (columns K and L) were considered for analyses. LncRNA expression was in most cases less than that of the coding gene (column M). Coding genes function in various biological processes (column N). (XLSX 63 kb)

顺式共表达的长链非编码RNA（long non-coding RNA, lncRNA）与蛋白编码基因数据集。本数据集通过皮尔逊相关系数r（列F），对列A与列B所示的lncRNA与其最近邻（相邻或重叠）的蛋白编码基因（列D）之间的共表达关系进行判定：当r值大于0.602或小于-0.602时，视为具有显著相关性（双侧t检验，p<0.05，样本量n=11）。共表达的lncRNA/蛋白编码基因对按r值的绝对值进行排序，其中正r值代表正相关，负r值代表负相关（列G）。lncRNA与蛋白编码基因之间的距离（列H）定义为二者最近边界的间距，不考虑链方向（列C与列E）；对于重叠的lncRNA与蛋白编码基因，该距离设为0。lncRNA可位于编码基因体的上游、重叠区域或下游（列I）。部分lncRNA会重叠编码基因的启动子区域（列J），启动子被定义为基因上游10kb的序列。仅平均表达量大于1 CPM的lncRNA与蛋白编码基因（列K与列L）可纳入本次分析。多数情况下，lncRNA的表达量低于蛋白编码基因（列M）。蛋白编码基因参与多种生物学过程（列N）。（XLSX格式，大小63KB）