Ioannis Sarropoulos

Reconstructing human gene regulatory evolution using deep learning

This study uses deep learning to predict cis-regulatory effects of human-specific mutations across 305 tissues, revealing their role in gene expression evolution.

STEER-seq: a recombinase based platform for pooled multimodal single-cell perturbation screening

STEER-seq enables pooled single-cell perturbation screening in hiPSCs by using defined genomic integration and barcode tracking to study transcription factor effects on cell identity.

Multimodal Hypersampling of the adult human heart resolves tissue-specific cell states and disease-associated variants

This paper creates a detailed heart atlas using multimodal data to identify cell states and disease-associated genetic variants in specific heart regions.

A multi-omics atlas of human hindbrain development

This paper creates a multi-omics atlas of human hindbrain development, revealing cellular diversity, regulatory programs, and disease relevance.

The evolution of gene regulation in mammalian cerebellum development

This study identifies conserved and diverged gene regulatory networks in mammalian cerebellum development using single-nucleus gene expression and chromatin accessibility data from six species.

Gene regulatory innovations from transposable elements in mammalian cerebellum development

The paper identifies TE fragments with regulatory potential in cerebellar development across species and introduces a framework to analyze their contribution to gene regulation.

The evolution of gene regulatory programs controlling gonadal development in primates

This study analyzes gene regulatory programs in primate gonads, finding shared and species-specific regulatory dynamics and candidate genes for sex development disorders.

Medulloblastoma oncogene aberrations are not involved in tumor initiation, but essential for disease progression and therapy resistance

The paper uses single-cell technologies to show that large-scale chromosomal aberrations drive medulloblastoma initiation, while single-gene oncogenic events like MYC contribute to progression and therapy resistance.

Developmental origins and evolution of pallial cell types and structures in birds

The paper characterizes the avian pallium's cell types and evolution using single-cell and spatial transcriptomics, revealing conserved and divergent features across amniotes.

Enhancer-driven cell type comparison reveals similarities between the mammalian and bird pallium

The paper compares enhancer codes of cell types between mammalian neocortex and avian pallium using deep learning, finding higher divergence in excitatory neurons than other cell types.

Bin2cell reconstructs cells from high resolution Visium HD data

Bin2cell reconstructs cells from high-resolution Visium HD data by integrating morphology and gene expression, improving downstream analysis on mouse brain and human colorectal cancer data.

Cell-state plasticity drives heterogeneity in Group 3/4 medulloblastoma

This study identifies cell-state plasticity as a driver of heterogeneity in Group 3/4 medulloblastomas, showing that transcription factor perturbation can redirect tumor cells along different differentiation trajectories.

The regulatory landscape of cells in the developing mouse cerebellum

This study maps the regulatory landscape of mouse cerebellum development using snATAC-seq, identifying cis-regulatory elements and their spatiotemporal dynamics.

Developmental gene expression differences between humans and mammalian models

The paper identifies developmental gene expression differences between humans and mammalian models, finding that half of human genes differ from their mouse orthologs in temporal trajectories, particularly for disease-related genes.