Declan Clarke

This study uses single-nucleus multiome sequencing to identify HIV-associated transcriptional and epigenetic changes in brain regions of individuals with HIV, revealing altered glial cell states and pro-inflammatory signaling.

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 processes single-nuclei multi-omics data from 388 human brains to identify regulatory elements and build cell-type networks, revealing changes in aging and neuropsychiatric disorders.

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.

The paper constructs a cross-ancestry, cell-type-informed gene regulatory atlas of the developing human brain, identifying genetic regulation and linking it to neuropsychiatric disorders.

The paper identifies trans-eQTLs in the human prefrontal cortex and links them to schizophrenia risk genes, showing their role in disease mechanisms.

The paper describes the role of the Centers for Mendelian Genomics in advancing gene discovery through data sharing, collaboration, and resource development over the past decade.

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.

This paper identifies cancer driver genes by analyzing mutational hotspots in 3D protein structures, incorporating protein dynamics to improve sensitivity.

The paper evaluates the impact of sequence variants by analyzing localized structural frustration in protein structures, finding that disease-associated SNVs and rare variants cause greater local disruption.