introductory-analysis-and-validation-of-cut-run-sequencing-data

Introductory Analysis and Validation of CUT&#38;RUN Sequencing Data

The CUT&amp;RUN technique facilitates detection of protein-DNA interactions across the genome. Typical applications of CUT&amp;RUN include profiling ...

University of Texas MD Anderson Cancer Center

Transcription factors bind DNA in specific sequence contexts. In addition to distinguishing one nucleobase from another, some transcription factors can distinguish between unmodified and modified bases. Current models of transcription factor binding tend not to take DNA modifications into account, while the recent few that do often have limitations. This makes a comprehensive and accurate profiling of transcription factor affinities difficult.

Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet.

Subsets of long interspersed nuclear element 1 (LINE-1) retrotransposons can 'retrotranspose' throughout the human genome at a cost to host cell fitness, as observed in some cancers. Pharmacological inhibition of LINE-1 retrotransposition requires a comprehensive understanding of the LINE-1 ORF2p reverse transcriptase. Two recent publications, by Thawani et al. and Baldwin et al., report structures of LINE-1 ORF2p and address long-standing mechanistic gaps regarding LINE-1 retrotransposition. Both studies will be critical to design new specific inhibitors of the LINE-1 ORF2p reverse transcriptase.

Article	Year
Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet. Genome biology\| PubMed ID: 38191487	2024
Insights into LINE-1 reverse transcription guide therapy development. Trends in cancer\| PubMed ID: 38499453	2024

Charles A. Ishak

Biography

JoVE Journal Publications

Other Publications