Jinrui Xu

The paper identifies how adenoviruses rewire DDR signaling to activate a pro-survival network that drives chemotherapy resistance.

The paper identifies dMPO mutations that disrupt protein stability and alter gene expression in Drosophila, linking single-point mutations to systemic biological changes.

The paper expands the ENCODE Registry of candidate cis-regulatory elements (cCREs) to include 2.35 million human and 927 thousand mouse cCREs, revealing novel regulatory functions and identifying KLF1 as a causal gene for red blood cell traits.

The paper presents a catalog of transcription factor binding sites in Drosophila and C. elegans, revealing tissue-specific regulatory relationships using machine learning.

The paper introduces the EN-TEx resource, which provides personal epigenomes and variant-impact models across multiple tissues, revealing allele-specific loci and their associations with GWAS loci.

This study compares mock IP and DNA input controls in ChIP-seq, showing that mock IP better removes spurious sites, while DNA input has unique advantages, and proposes combining both for improved binding site detection.

The paper identifies that less crowded and shorter transcription factor binding sites improve motif inference, showing a 30%-70% improvement in motif quality.

The paper develops a custom ENCODE annotation for cancer genomics, highlighting TF-RBP interactions and network rewiring during oncogenesis, and validates findings using experimental assays.

GRAM predicts the molecular effect of non-coding variants in a cell-type specific manner using SELEX and expression profiles, achieving high performance on MPRA and luciferase assays.