Supporting data for Identification of a novel m6Am reader and characterization of its role in mRNA transcriptional regulation
<p dir="ltr">This dataset supports the study titled <i>"</i><i>Identification of a novel m6Am reader and characterization of its role in mRNA transcriptional regulation</i><i>"</i> . The research investigates the epitranscriptomic modification m6Am and its role in transcriptional regulation through interaction with the cleavage and polyadenylation factor PCF11. By integrating multiple transcriptomic and biochemical approaches, the study reveals how m6Am modulates premature transcription termination and contributes to neuroblastoma cell differentiation.</p><p dir="ltr">The data were generated from various high-throughput sequencing experiments and molecular assays conducted primarily in human neuroblastoma BE(2)C cells. The sample size varies by assay, with biological replicates included for key experiments to ensure reproducibility.</p><p dir="ltr">The dataset includes:</p><p dir="ltr">BED files for genomic visualization of peaks and features (viewable in IGV).</p><ul><li><b>RNA-seq</b> and <b>SLAM-seq</b> data to quantify gene expression and transcriptional dynamics.</li><li><b>ChIP-seq</b> data to map PCF11 and RNA Polymerase II binding landscapes.</li><li><b>fPAR-CLIP</b> data to identify transcriptome-wide RNA-protein interaction sites.</li><li><b>m6ACE-seq</b> data to profile m6Am methylation sites.</li><li><b>PCT-seq</b> data to detect prematurely cleaved transcripts genome-wide.</li><li>Related numerical data used to generate box-and-whisker plots have also been exported as tables for condition-wise comparison.</li><li>Reporter assay data to validate the role of m6Am in transcription.</li><li>Unprocessed images (<a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#fig2" target="_blank">Figures 2</a>C, <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#fig6" target="_blank">6</a>A, 6D–6F, <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">S1</a>N, <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">S2</a>A, S2C, S2I, S2J, <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">S3</a>A, S4D, S4G, S6A, and S6J, western blots. <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">Figure S2</a>B, non-denaturing PAGE. <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">Figure S2</a>C, denaturing PAGE. <a href="https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00827-X#mmc1" target="_blank">Figure S2</a>K, Coomasie.) —have been uploaded to support the quantification of assay readouts under different treatments.</li></ul><p dir="ltr">All data files are processed and well-organized to facilitate reuse by other researchers. No personally identifiable or confidential information is included.</p>
