Jin Xu

The paper investigates the reliability of mitochondrial DNA variants as lineage markers, finding that most are pre-existing heteroplasmy rather than de novo mutations, and introduces a score to identify reliable markers.

MitoSort uses mtDNA germline variants to accurately demultiplex pooled single-cell data and detect doublets, outperforming existing methods for scRNA-seq in mtscATAC-seq.

This study investigates OR gene expression and regulation in honeybee olfactory sensory neurons using single-cell multi-omics, revealing promoter activation patterns and functional receptor production.

The paper identifies a mitochondrial DNA bottleneck during lymphocyte development, leading to homoplastic mutations despite lower mutational burden.

PEPATAC is an ATAC-seq analysis pipeline that improves speed and accuracy through serial mitochondrial genome alignment, providing standardized outputs for downstream analysis.

This study uses scLOESS to trace lineage commitments in zebrafish embryos, revealing development histories and ongoing lineage events through single-cell analysis.

This study shows Spen binds to endogenous retroviral RNAs and recruits chromatin silencing machinery, linking RNA-mediated retrovirus silencing to X chromosome inactivation.

EMBLEM uses mitochondrial DNA mutations in ATAC-seq data to track cell lineage with high sensitivity and specificity in acute myeloid leukemia.

The paper identifies lnc-NR2F1 as a pro-neurogenic lncRNA mutated in neurodevelopmental disorders through genetic and functional studies.

The paper studies chromosomal evolution in cancer cell lines, finding that cells lose sex chromosomes and gain autosomes, leading to a 2:3 X:A ratio that may enhance fitness.

This paper uses HiChIP to map enhancer-promoter interactions in primary human cells, linking disease-associated DNA variants to their target genes.