Matthew T. Weirauch

The paper links IBD polygenic risk to TNFi response using multiome-seq and genetic data from pediatric IBD patients.

The paper presents a chromosome-level genome assembly and manual annotation of Diaphorina citri, along with transcriptome and endosymbiont genomes, providing genomic resources for pest control research.

The paper identifies a regulatory pathway involving rs7034653, FRA2, and TRAF1 that explains how a non-coding variant increases risk of inflammatory arthritis.

VExD curates human gene expression data from viral infections to identify expression changes and support experimental validation.

This study identifies OVOL1 as a regulator of SPINK7 expression in eosinophilic esophagitis, showing AHR activation enhances SPINK7 and barrier function while IL-4 and IL-13 inhibit this pathway.

This study shows that macrophage epigenetic changes from early life injury influence pain responses later in life, with a focus on sex-specific effects.

maxATAC provides deep learning models for predicting transcription factor binding sites from ATAC-seq data, improving prediction in primary and single-cell contexts.

The paper identifies a non-coding variant that increases ICOS expression, leading to more T peripheral helper cells and contributing to autoimmune diseases.

The paper maps promoter interactions in human ILC3s using PCHi-C and links GWAS risk variants to target genes, identifying new autoimmune disease risk genes.

NOMe-HiC jointly profiles genetic variants, DNA methylation, chromatin accessibility, and 3D genome structure from the same DNA molecule, showing high concordance with mono-omic assays and revealing coordinated chromatin accessibility in spatially proximal regions.

This study identifies epigenetic and transcriptional dysregulation in CD4+ T cells of atopic dermatitis patients, linking genetic risk variants to altered chromatin accessibility and NFKB1 binding.

This study shows EBNA2 alters chromatin structure and gene expression at autoimmune risk loci, linking viral infection to genetic risk mechanisms in autoimmune diseases.

The paper shows that enhancers with SPS sites are more resistant to repression by Hairless co-repressor compared to those with CSL sites.

The paper identifies a dysfunctional enhancer linked to IRF8 expression through CRISPRa screening and shows its regulation by a lncRNA and DNA methylation.

This study shows that Runx1 deletion in mK4 cells leads to widespread chromatin and gene expression changes, with indirect effects mediated by Zeb2.

The paper identifies 482 SLE risk variants with enhancer activity and characterizes allelic regulatory mechanisms at 27 risk loci using MPRA.

The paper identifies a non-coding genetic variant associated with SLE that regulates miR-146a expression through a cell-type specific enhancer.

The paper identifies alternative splicing programs in three germ layers and shows Quaking's role in cardiac mesoderm specification through splicing regulation.

This study identifies 113 genomic loci for SLE in East Asians, including 46 novel loci, and highlights non-immune cell-related biological mechanisms.

The paper presents the first genome sequence for a thysanopteran insect, providing insights into its biology and evolution as a crop pest.

This study shows Gli3 and Hand2 work together to control gene expression in craniofacial development without relying on a graded Hh signal.

The paper identifies Sox17 and β-catenin interactions at enhancers that regulate endoderm gene expression and repression of mesectoderm fates during Xenopus gastrulation.

The paper shows that super-enhancer switching drives bursts in germline gene expression during the mitosis-to-meiosis transition in testis.

This study provides insights into the biology of the stable fly by combining genome sequencing, microbiome analysis, and RNA-seq to identify genes related to reproduction, host interactions, and pest control.

The paper presents the milkweed bug genome and comparative analyses to study molecular evolution and feeding ecology in Hemiptera.

The paper identifies IRF4 as a key transcription factor driving antigen cross-presentation in human Langerhans cells, distinguishing them from conventional dendritic cells.

The paper presents a comparative genomic analysis of six Glossina species, identifying genetic features related to their unique biology and vectorial capacity.

The paper investigates how genetic, inflammatory, and epithelial cell differentiation factors regulate CAPN14 expression in eosinophilic esophagitis.

This study identifies a fetal genome-wide association signal near pro-inflammatory cytokine genes on 2q13 linked to gestational duration and preterm/postterm birth.