Kevin L. He

Read counts mapped to mitochondrial genome

RIP-seq Histogram of H1944, H23 and PC9 with and without IMT-1 Treatment

Representative peak analysis for heteroplasmy

IF of cell lines with IMT-1 Treatment

Enrichment of mtdsRNAs is captured through dsRNA-seq in selected NSCLC cell lines. A, Workflow of RIP-seq. B, Quantification of unique reads detected by RIP-seq. Reads from the heavy (red) and light (blue) strands were mapped to the mitochondrial genome ChrMT. See Supplementary Fig. S1 for an enlarged view of the sequencing data. C and D, Statistical analysis of successfully aligned reads per genomic feature (gene, CDS, rRNA, exon, and D-loop, with either tRNA included or excluded). Bar represents average. Error bars represent ± SEM. P values are represented as is. One-way ANOVA was completed. Each dot represents an independent experiment (n = 3). E, Mitochondrial genome mapped with primers used for long-read sequencing. Primers can be found in Supplementary Table S1. Green: ND5 Fwd → RNR2 Rev. Blue: RNR2 Fwd → Cox3 Rev. Orange: Cox3 Fwd → ND5 Rev. F, Gel showing the bands generated by PCR across three different cell lines used for ADAR sequencing. Representative of three independent experiments (n = 3).

IF of cell lines with IMT-1 Treatment

Enrichment of mtdsRNAs is captured through dsRNA-seq in selected NSCLC cell lines. A, Workflow of RIP-seq. B, Quantification of unique reads detected by RIP-seq. Reads from the heavy (red) and light (blue) strands were mapped to the mitochondrial genome ChrMT. See Supplementary Fig. S1 for an enlarged view of the sequencing data. C and D, Statistical analysis of successfully aligned reads per genomic feature (gene, CDS, rRNA, exon, and D-loop, with either tRNA included or excluded). Bar represents average. Error bars represent ± SEM. P values are represented as is. One-way ANOVA was completed. Each dot represents an independent experiment (n = 3). E, Mitochondrial genome mapped with primers used for long-read sequencing. Primers can be found in Supplementary Table S1. Green: ND5 Fwd → RNR2 Rev. Blue: RNR2 Fwd → Cox3 Rev. Orange: Cox3 Fwd → ND5 Rev. F, Gel showing the bands generated by PCR across three different cell lines used for ADAR sequencing. Representative of three independent experiments (n = 3).

MtdsRNA is identified beyond NSCLC cell lines. A, Summary table of the results. B and C, Fraction of reads mapped to light (red) and heavy (blue) strands of mitochondrial genome (ChrMT) detected in LUAD and LUSC patient samples. Each bar represents one patient. D and E, Fraction of reads uniquely mapped to light (red) and heavy (blue) strands of mitochondrial genome (ChrMT) in COAD and breast cancer (BRCA) patient samples. Each bar represents one patient. F, Fraction of reads mapped to light (red) and heavy (blue) strands of mitochondrial genome (ChrMT) detected in prostate cancer cell lines and patient samples. G, Box plot of fraction of reads mapped to the light strand of chrMT in prostate cancer cell lines and patient samples.