While single-cell technologies have greatly advanced our comprehension of human brain cell types and functions, studies including large numbers of donors and multiple brain regions are needed to extend our unde
While single-cell technologies have greatly advanced our comprehension of human brain cell types and functions, studies including large numbers of donors and multiple brain regions are needed to extend our understanding of brain cell heterogeneity. Integrating atlas-level single-cell data presents a chan...
A brain cell atlas integrating single-cell transcriptomes across human brain regions A single-cell transcriptomic study from the Human Cell Atlas integrating over 11 million brain cells from 70 studies uncovers differences across human brain regions and identifies rare progenitor and microglia subtypes....
Single cell capture and library construction was performed using the 10 × Chromium microfluidic device and the Chromium Single Cell 3’ v2 Library and Gel Bead Kit (10 × Genomics, Pleasanton, CA). Manufacturer’s recommendations were followed for cell collection and library preparation. ...
framework graphical interface standardized processing and data structure single cell analysis Introduction Discovering novel mechanisms in brain circuits requires high-resolution monitoring of the constituent neurons and an understanding of the nature of their interactions. Large-scale, extracellular electrophysiolo...
G. Downstream analysis of scRNA-seq data: cell clustering. H. Downstream analysis of scRNA-seq data: cell type annotation. I. Downstream analysis of scRNA-seq data: trajectory inference. scRNA-seq, single-cell RNA sequencing; M, mitotic phase, i.e., nuclear division of the cell (including...
clonealign: Bayesian inference of clone-specific gene expression estimates by integrating single-cell RNA-seq and single-cell DNA-seq data CellFishing.jl: (cell finder via hashing) is a tool to find similar cells of query cells based on their transcriptome expression profiles. VIPER: variability-...
We propose a collection of best practices to generate a highly detailed molecular cell atlas of highly informative frozen tissue stored in brain banks. Importantly, we have developed a new web application to make this unique single-nuclei molecular atlas publicly available. ...
[Nature Methods] scGPT: toward building a foundation model for single-cell multi-omics using generative AI.[Paper],[Code] [Nature Machine Intelligence] A 5’ UTR language model for decoding untranslated regions of mRNA and function predictions.[Paper],[Code] ...
The Drosophila ovary is a widely used model for germ cell and somatic tissue biology. Here we use single-cell RNA-sequencing (scRNA-seq) to build a comprehensive cell atlas of the adult Drosophila ovary that contains transcriptional profiles for every ma