Chuan He

This paper introduces RAD-seq, a method to quantify RNA accessibility by protein binding, and shows it can detect RBP footprints and RNA structure changes under stress.

The paper demonstrates the feasibility of detecting methylation differences in serum-derived cell-free DNA between Alzheimer's disease and non-AD controls using LABS, linking these changes to brain-specific epigenetic alterations in AD.

This study identifies the m6A-SIRP axis as a regulator of efferocytosis in atherosclerosis, showing myeloid m6A loss increases plaque instability.

This study shows that loss of TDP-43 function leads to increased cryptic circular RNAs in neurodegenerative diseases.

This paper introduces BALT-seq, a one-step chemoselective method for hydroxymethylcytosine profiling in DNA and RNA, showing high concordance with existing methods and improved RNA enrichment.

This paper shows that 5-azaC induces leukemia cell death by depleting m5C in chromatin-associated RNA, leading to transcriptional repression and disrupting key regulatory pathways.

This study shows that 5-hydroxymethylcytosine (5-hmC) and H3K27me3 co-localize on PRC2 target genes in MYCN-amplified neuroblastoma, repressing developmental genes and sensitizing tumors to DNA demethylating agents.

This paper identifies a U1-U3 snRNA-snoRNA interaction that links SF3B1 mutations to chromatin-state changes and genome instability, with therapeutic potential through antisense oligonucleotides.

The paper uses super-resolution imaging and in situ sequencing to map RNA distribution within nucleolar subdomains, revealing distinct RNA populations and processing dynamics.

The paper investigates how nuclear speckles regulate splicing and stem cell function in muscle stem cells during activation, injury, and aging.

This study shows that YTHDF1 mediates m6A mRNA methylation in neuronal adaptation to environmental challenges, with distinct roles in D1 and D2 neurons.

The paper reveals an m6A-dependent mechanism where microRNAs bind chromatin-associated RNAs to activate transcription by recruiting chromatin remodelers and demethylases.

The paper develops covalent ligands that specifically target a complexoform of TRMT112, revealing partner-specific functional effects through allosteric activation of METTL5.

The paper maps m6A modifications in zebrafish embryos at single-nucleotide resolution, showing a significant decrease during maternal-to-zygotic transition.

UMBS-seq improves 5-methylcytosine detection in low-input DNA by reducing degradation and noise, outperforming existing methods in yield and efficiency.

This study identifies two critical m6A-regulated developmental windows in human erythropoiesis, showing m6A-MTase activity is essential for proliferation and differentiation in BFU-E and CFU-E.

This study identifies FUBP1 as an Nm-binding protein and shows it regulates splicing by binding to Nm-modified intronic regions.

This study identifies m6A RNA modifications and their role in HIV-1 infection of primary CD4+ T cells, showing cell-type specific effects on PLIN3 expression and HIV-1 production.

This study shows that LINE1 RNA dysregulation impairs chromatin accessibility in ALS/FTD, leading to transcriptional changes and neuronal dysfunction.

This study uses 5hmC-Seal technology to detect 5hmC signatures in cfDNA from plasma, identifying peritoneal metastases in CRC and AA with high sensitivity but moderate specificity.

This study identifies METTL3-mediated m6A modification of DNMT1 as a driver of ovarian cancer progression by enhancing DNMT1 translation and suppressing tumor suppressors.

This study uses SAC-seq to map m6A modifications at single-nucleotide resolution in bovine preimplantation embryos, identifying a critical m6A site in RPL12 that regulates translation and development.

This study identifies DCPS as a genetic modifier of TDP-43 loss-of-function neurotoxicity by restoring P-body integrity and RNA turnover in human neurons.

The paper introduces eTAM-seq-v2, an improved method for m6A profiling with higher fidelity and lower input requirements, and applies it to human cells and mouse tissues.

The paper identifies and characterizes surface non-coding RNAs, particularly Y RNAs, on human monocytes and B cells, revealing their role in innate immune activation by regulating IL-6 expression.

This study identifies YTHDF proteins as key regulators of Alzheimer's disease brain gene signatures through m6A-dependent and independent mechanisms.

The paper investigates RNA localization to nuclear speckles and finds that splicing efficiency is linked to transcript enrichment in these organelles.

This study shows YTHDF2 regulates inflammatory signaling in astrocytes during neurotoxic stress by modulating SEK1-JNK-cJUN pathway activation.

The paper identifies 46,802 enhancers and 164 psychiatric disorder variants with regulatory effects in the developing cortex and organoids using massively parallel reporter assays and deep learning.

The paper generates a molecular neuroanatomical map of the human prefrontal cortex using spatial transcriptomics and single nucleus RNA-sequencing, revealing novel spatial domains and cell-cell interactions linked to psychiatric disorders.