found that the nuclear protein MeCP2 (Methyl-CpG binding protein 2) may pass through the nuclear pore complex in its NLS-independent manner and import proteins, which contains two sequence-specific DNA binding motifs, AT-hook1 and methyl-CpG binding domain (MBD). Among them, an intact MBD ...
Polyomavirus large T-antigen binds to GRGGC sites in double-stranded viral DNA, regulating transcription and replication. Using surface plasmon resonance to record interactions of large T-antigen with different types of binding sites, we found that the configuration of recognition motifs influenced both...
The most organism requires energy for the cleavage ofATPand NAD+. Energy is required for the joining of nicks (nicks lack the phosphodiester linkage between the nucleotide sequence) of DNA. Whereas eukaryotic DNA ligases are ATP-dependent bacteria, archaea and virus DNA ligases are both NAD+ and...
PANDA exhaustively utilizes information of co-expressed genes where TF-gene interactions are inferred by the detection of transcription binding motifs in the promoter and a priori inter-TF protein-protein interaction network. PANDA evaluates the strength of the interaction marked by each edge connecting...
For example, miR-137 inhibited the proliferation of lung cancer cells by targeting Cdc42 and Cdk6. Meanwhile, miR-137 was downregulated in lung cancer cells by DNA methylation52. Therefore, lung cancer-miR-137 association was classified into both epigenetic and miRNA-target interaction types. In...
demonstrate that the differential distribution of general regulatory factor (GRF) binding sites and two short DNA motifs leads to establishment of either of two nucleosome architectures at all yeast promoters. GRF binding and chromatin remodeling contributes to destabilization of the 1 nucleosome at ...
A fraction of centromere repeats contains a 17 bp motif named the CENP-B box. CENP-B boxes are the binding site for CENP-B (Centromere Protein B), the only sequence-specific centromeric DNA-binding protein identified so far10. The importance of CENP-B in centromere biology is currently ...
DNA methylation is a fundamental epigenetic mark that governs gene expression and chromatin organization, thus providing a window into cellular identity and developmental processes1. Current datasets typically include only a fraction of methylation sites
L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009). Article PubMed PubMed Central Google Scholar Gentleman, R. C. et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 5, ...
DNA, deoxyribonucleic acid, is a long polymer composed of two strands of nucleotides. Each nucleotide is composed of three parts: the 5-carbon sugar deoxyribose, a phosphate group attached the the 5' carbon of the sugar, and a nitrogenous base attached to the 1' carbon...