Publications by Shaoline Sheppard

Clusters of lineage-specific genes are anchored by ZNF274 in repressive perinucleolar compartments

Didier Trono, Sandra Eloise Kjeldsen, Julien Léonard Duc, Olga Marie Louise Rosspopoff, Delphine Yvette L Grun, Shaoline Sheppard

Long known as the site of ribosome biogenesis, the nucleolus is increasingly recognized for its role in shaping three-dimensional (3D) genome organization. Still, the mechanisms governing the targeting of selected regions of the genome to nucleolus-associa ...

American Association for the Advancement of Science (AAAS)2024

Statistical learning quantifies transposable element-mediated cis-regulation

Didier Trono, Evaristo Jose Planet Letschert, Julien Léonard Duc, Cyril David Son-Tuyên Pulver, Alexandre Coudray, Julien Paul André Pontis, Delphine Yvette L Grun, Shaoline Sheppard, Raphaël Gérard Théodore Michel Marie de Deloÿe et Fourcade de Fondeville

Background: Transposable elements (TEs) have colonized the genomes of most metazoans, and many TE-embedded sequences function as cis-regulatory elements (CREs) for genes involved in a wide range of biological processes from early embryo- genesis to innate ...

2023

Transposable elements contribute to the spatiotemporal microRNA landscape in human brain development

Didier Trono, Evaristo Jose Planet Letschert, Shaoline Sheppard, Christopher James Playfoot

Transposable elements (TEs) contribute to the evolution of gene regulatory networks and are dynamically expressed throughout human brain development and disease. One gene regulatory mechanism influenced by TEs is the miRNA system of post-transcriptional co ...

2022

Transposable elements and their KZFP controllers are drivers of transcriptional innovation in the developing human brain

Didier Trono, Evaristo Jose Planet Letschert, Julien Léonard Duc, Alexandre Coudray, Shaoline Sheppard, Sagane Dind, Christopher James Playfoot

Transposable elements (TEs) account for more than 50% of the human genome and many have been co-opted throughout evolution to provide regulatory functions for gene expression networks. Several lines of evidence suggest that these networks are fine-tuned by ...

COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT2021

Homoeolog Inference Methods Requiring Bidirectional Best Hits or Synteny Miss Many Pairs

Shaoline Sheppard

Homoeologs are pairs of genes or chromosomes in the same species that originated by speciation and were brought back together in the same genome by allopolyploidization. Bioinformatic methods for accurate homoeology inference are crucial for studying the e ...

OXFORD UNIV PRESS2021