Bradley Robert Cairns

This paper identifies a chromatin-altered subtype of urothelial carcinoma defined by SWI/SNF alterations, showing it is sensitive to HDAC inhibition and immunotherapy.

The paper defines a 3D chromatin compartment blueprint that programs histone-to-protamine exchange during spermiogenesis using ATAC-seq, CUT&Tag, and Hi-C.

This study shows that SS18::SSX can drive transcription independently of BAF complex interaction and relies on EP300 for gene activation, suggesting new therapeutic targets for synovial sarcoma.

This paper shows SS18::SSX fusion protein alters BAF chromatin remodeler distribution, leading to transcriptional activation and repression by changing histone modifications at regulatory regions.

The paper investigates chromatin reprogramming during embryonic genome activation in bovine embryos, finding that SCNT embryos fail to reprogram certain EGA gene targets and that DUXC over-expression can rescue this defect.

The paper identifies active and inactive regions within mouse DUX that recruit chromatin regulators to enhance the embryonic gene expression program.

This study identifies a redox-sensitive cysteine residue in Oct4 that regulates reprogramming and differentiation by affecting DNA binding and ubiquitylation.

The paper shows how developmental gene silencing is established in zebrafish embryos through H2Aub1 deposition by Rnf2-PRC1, followed by Aebp2-PRC2 recruitment and H3K27me3 deposition.

This study uses reciprocal zebrafish-medaka hybrids to show that maternal factors primarily control the timing of zygotic genome activation.

The paper identifies maternally-deposited antisense piRNAs that silence transposons in zebrafish embryos by targeting young LTR retrotransposons and promoting H3K9me2/3 modification.

This study uses spatial transcriptomics to create a spatial atlas of testis gene expression, identifying spatially segregated spermatogonial populations and disruptions in diabetic testes.

This study uses single-cell RNA-seq to analyze age-related changes in human testis and finds that dysregulation correlates with BMI in older men.

The paper examines genome architecture changes during medaka gastrulation, finding that CTCF loops form while CTCF binding sites remain fixed, and transcription precedes mature domain formation.

The paper shows Rsc1 and Rsc2 sub-complexes of the RSC chromatin remodeler differ in their ability to remodel partially-unwrapped nucleosomes, with Rsc1 being more effective and essential under certain conditions.

The paper shows zebrafish primordial germ cells use germ plasm in two phases to regulate transcriptome divergence from somatic cells through post-transcriptional mechanisms and chromatin changes.

This study shows paternal cigarette smoke exposure alters sperm DNA methylation and offspring gene expression, with oxidative stress mediating these heritable changes.

The paper shows that Polycomb-mediated repression maintains spatial gene expression in zebrafish after body plan formation, with minimal global changes in gene expression.

This paper develops a DNA methylation age prediction model for human sperm, achieving high accuracy and repeatability, and identifies smoking as a subtle factor affecting sperm aging.

The paper identifies Placeholder nucleosomes in zebrafish that prevent DNA methylation and regulate gene activation during early embryonic development.