Kyle A. Sullivan

Resolving in vitro heterogeneity of host functional responses to HCoV-229E via single-cell analyses

The paper uses single-cell RNA sequencing and ATAC-seq to analyze host responses to HCoV-229E infection, revealing heterogeneous transcriptional and regulatory changes across infected cells.

Epigenomic manipulation reveals the relationship between locus specific chromatin dynamics and gene expression

The paper investigates how chromatin dynamics and gene expression change after epigenetic drug treatment, finding locus-specific chromatin remodeling and gene expression alterations.

RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species

RWRtoolkit enables multi-omic network analysis using random walks on multiplex networks across any species, providing tools for topological analysis and statistical evaluation.

MENTOR: Multiplex Embedding of Networks for Team-Based Omics Research

MENTOR is a network-based algorithm that partitions gene sets into functions and identifies biological functions in Populus trichocarpa associated with microbial abundance using supervised and unsupervised learning.

Digging deeper into GWAS signal using GRIN implicates additional genes contributing to suicidal behavior

This study relaxes GWAS significance thresholds and uses GRIN to identify additional genes linked to suicidal behavior, which replicate across cohorts and show stronger biological connections.