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Olga Pushkarev

Cette personne a quitté l’EPFL

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Publications associées (4)

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Leveraging chromatin modules to explore the impact of regulatory variation on disease

Olga Pushkarev

Human genome is complex and hierarchically organized within the nucleus, where cis-regulatory elements (CREs) frequently interact within topologically associated domains to regulate gene expression. While genomic technologies and computational approaches h ...

EPFL2025

Non-coding variants impact cis-regulatory coordination in a cell type-specific manner

Bart Deplancke, Vincent Roland Julien Gardeux, Guido Van Mierlo, Wouter Jozef L Saelens, Olga Pushkarev, Judith Franziska Kribelbauer

Background: Interactions among cis-regulatory elements (CREs) play a crucial role in gene regulation. Various approaches have been developed to map these interactions genome-wide, including those relying on interindividual epigenomic variation to identify ...

2024

ChromatinHD connects single-cell DNA accessibility and conformation to gene expression through scale-adaptive machine learning

Bart Deplancke, Wouter Jozef L Saelens, Olga Pushkarev

Gene regulation is inherently multiscale, but scale-adaptive machine learning methods that fully exploit this property in single-nucleus accessibility data are still lacking. Here, we develop ChromatinHD, a pair of scale-adaptive models that uses the raw a ...

Nature Research2025

Context transcription factors establish cooperative environments and mediate enhancer communication

Bart Deplancke, Vincent Roland Julien Gardeux, Julie Marie Russeil, Guido Van Mierlo, Olga Pushkarev, Judith Franziska Kribelbauer

Many enhancers control gene expression by assembling regulatory factor clusters, also referred to as condensates. This process is vital for facilitating enhancer communication and establishing cellular identity. However, how DNA sequence and transcription ...

2024