NURBS: a database of experimental and predicted nuclear receptor binding sites of mouse

作者：Fang Yaping; Liu Hui Xin; Zhang Ning; Guo Grace L; Wan Yu Jui Yvonne; Fang Jianwen^*

来源：Bioinformatics, 2013, 29(2): 295-297.

DOI：10.1093/bioinformatics/bts693

Nuclear receptors (NRs) are a class of transcription factors playing important roles in various biological processes. An NR often impacts numerous genes and different NRs share overlapped target networks. To fulfil the need for a database incorporating binding sites of different NRs at various conditions for easy comparison and visualization to improve our understanding of NR binding mechanisms, we have developed NURBS, a database for experimental and predicted nuclear receptor binding sites of mouse (NURBS). NURBS currently contains binding sites across the whole-mouse genome of 8 NRs identified in 40 chromatin immunoprecipitation with massively parallel DNA sequencing experiments. All datasets are processed using a widely used procedure and same statistical criteria to ensure the binding sites derived from different datasets are comparable. NURBS also provides predicted binding sites using NR-HMM, a Hidden Markov Model (HMM) model.

• 出版日期2013-1-15
• 单位天津大学