Innovations in high-throughout sequencing approaches are being marshaled to both reveal the composition of the abundant and heterogeneous noncoding RNAs that populate cell nuclei and lend insight to the mechanisms by which noncoding RNAs influence chromosome biology and gene expression. This review focuses on some of the recent technological developments that have enabled the isolation of nascent transcripts and chromatin-associated and DNA-interacting RNAs. Coupled with emerging genome assembly and analytical approaches, the field is poised to achieve a comprehensive catalog of nuclear noncoding RNAs, including those derived from repetitive regions within eukaryotic genomes. Herein, particular attention is paid to the challenges and advances in the sequence analyses of repeat and transposable element–derived noncoding RNAs and in ascribing specific function(s) to such RNAs.

高通量测序方法的创新正在被编组，以揭示填充细胞核的丰富和异质非编码 RNA 的组成，并有助于深入了解非编码 RNA 影响染色体生物学和基因表达的机制。本综述重点关注最近的一些技术发展，这些发展使得分离新生转录物和染色质相关和 DNA 相互作用的 RNA 成为可能。结合新兴的基因组组装和分析方法，该领域有望实现核非编码 RNA 的综合目录，包括来自真核基因组内重复区域的那些。在此处，