Lenka Maliskova

The paper identifies CD8+ T cells as key drivers of fibrosis in morphea-spectrum diseases through fibroblast IFN-γ signaling using spatial transcriptomics.

The paper identifies cell-specific transposable element (TE) gene expression associations with SLE phenotypes, finding 731 differentially expressed TEs linked to antiviral pathways and IFN signaling.

CRISPRpath enables parallel characterization of cis-regulatory elements for multiple genes in a pathway, identifying functional enhancers and distinguishing their impact on gene expression.

This study identifies ethnicity-specific transcriptomic subgroups in SLE patients using RNA-seq data and correlates them with disease activity.

This study characterizes 3D epigenomic landscapes during human corticogenesis, revealing chromatin looping and super interactive promoters involved in lineage-specific gene regulation.

The paper identifies cis-regulatory chromatin contacts in neural cells and links them to genetic variants associated with complex neurological disorders.

This study uses live-cell imaging to show that Sox2 transcription occurs without requiring enhancer proximity in embryonic stem cells.

The paper introduces demuxlet, an algorithm that uses natural genetic variation to multiplex single-cell RNA-seq samples, enabling accurate sample identification and doublet detection in pooled experiments.

This study shows CRISPRa can rescue Sim1 haploinsufficiency-induced obesity by targeting the promoter or enhancer, demonstrating tissue-specific upregulation of Sim1.