Samira Makhzami

TL;DR: A single-cell transcriptome atlas of the entire adult Drosophila melanogaster brain sampled across its lifespan is presented, allowing comprehensive exploration of all transcriptional states of an entire aging brain.

TL;DR: Analysis of melanoma cultures and large-scale gene expression analysis in patient samples indicate that an intermediate state exists and is driven by a distinct and stable ‘mixed’ GRN rather than being a symbiotic heterogeneous mix of cells.

TL;DR: The combination of deep learning and cross-species chromatin accessibility profiling to build explainable enhancer models is explored, and the accuracy of DeepMEL predictions on the CAGI5 challenge is shown, where it significantly outperforms existing models on the melanoma enhancer of IRF4.

TL;DR: DeepFlyBrain this article extracted the chromatin accessibility of 240,919 single cells spanning 9 developmental timepoints and integrated these data with single-cell transcriptomes to identify more than 95,000 regulatory regions that are used in different neuronal cell types, of which 70,000 are linked to developmental trajectories involving neurogenesis, reprogramming and maturation.

TL;DR: This work generates independent single‐cell RNA‐seq and ATAC‐seq atlases of the Drosophila eye‐antennal disc and spatially integrate the data into a virtual latent space that mimics the organization of the 2D tissue using ScoMAP (Single‐Cell Omics Mapping into spatial Axes using Pseudotime ordering).