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Very excited to share our @ScienceMagazine paper on single-cell #3D #genome reorganization in #Alzheimer's disease.
We jointly measured gene expression and 3D genome architecture in individual human brain cells using #GAGEseq, then integrated these data w/ chromatin accessibility and spatial transcriptomics. We uncovered increased #compartment #mingling and distance-dependent rewiring of gene regulatory contacts in AD.
We also developed #Hicformer, a transformer-based model that integrates DNA sequence with 3D genome features to predict cell type-specific gene expression and prioritize candidate regulatory elements.
Huge kudos to co-first authors @zocean636 and @xinyuelu1999; and many thanks to Zhijun Duan @UW, Hansruedi Mathys @PittTweet, & David Bennett @rushalzheimers for the wonderful collaboration, as well as to all our co-authors. @CarnegieMellon @SCSatCMU @CMUCompBio #AlzheimersDisease #3DGenome #SingleCell #AI
science.org/doi/10.1126/sc…
We jointly measured gene expression and 3D genome architecture in individual human brain cells using #GAGEseq, then integrated these data w/ chromatin accessibility and spatial transcriptomics. We uncovered increased #compartment #mingling and distance-dependent rewiring of gene regulatory contacts in AD.
We also developed #Hicformer, a transformer-based model that integrates DNA sequence with 3D genome features to predict cell type-specific gene expression and prioritize candidate regulatory elements.
Huge kudos to co-first authors @zocean636 and @xinyuelu1999; and many thanks to Zhijun Duan @UW, Hansruedi Mathys @PittTweet, & David Bennett @rushalzheimers for the wonderful collaboration, as well as to all our co-authors. @CarnegieMellon @SCSatCMU @CMUCompBio #AlzheimersDisease #3DGenome #SingleCell #AI
science.org/doi/10.1126/sc…
www.science.org Single-cell multiomics connects 3D genome and transcriptome alterations in Alzheimer’s disease Alzheimer’s disease (AD) disrupts brain function through cell type–specific transcriptomic and epigenomic alterations, yet the contribution of three-dimensional (3D) genome organization to AD remains... 
