Code for the analysis of scRNA-seq data from spinal cord ependymal cells of young and aged mice

Aida Rodrigo Albors; Gail Singer; Enric Llorens-Bobadilla; Jonas Frisén; Andrew P. May; Chris P. Ponting; Kate Storey

doi:10.5281/zenodo.7459070

Code for the analysis of scRNA-seq data from spinal cord ependymal cells of young and aged mice

Aida Rodrigo Albors (Creator)
, Gail Singer (Creator)
, Enric Llorens-Bobadilla (Creator)
, Jonas Frisén (Creator)
, Andrew P. May (Creator)
, Chris P. Ponting (Creator)
, Kate Storey (Creator)

Molecular Cell and Developmental Biology

Research output: Non-textual form › Software

Abstract

The adult spinal cord stem cell potential resides within the ependymal cell population and declines with age. Ependymal cells are, however, heterogeneous and the biological diversity this represents and how it changes with age remain unknown. This repository contains the code used to analyse single-cell RNA sequencing data of spinal cord ependymal cells from adult and aged mice that led us to uncover the profiles of all known ependymal cell subtypes and new immature and mature cell states. The R scripts are numbered based on which figure the analyses relate to.

Original language	English
Publisher	Zenodo
DOIs	https://doi.org/10.5281/zenodo.7459070
Publication status	Published - 19 Dec 2022

Keywords

spinal cord
ependymal cell
mouse
ageing
scRNA-seq
Smart-seq2
10x Genomics

Access to Document

10.5281/zenodo.7459070Licence: Other

1 Article

An ependymal cell census identifies heterogeneous and ongoing cell maturation in the adult mouse spinal cord that changes dynamically on injury
Rodrigo Albors, A., Singer, G. A., Llorens-Bobadilla, E., Frisén, J., May, A. P., Ponting, C. P. & Storey, K. G. (Lead / Corresponding author), 6 Feb 2023, In: Developmental Cell. 58, 3, p. 239-255.e10 17 p.
Research output: Contribution to journal › Article › peer-review

Open Access
File
32 Link opens in a new tab Citations (Scopus)

299 Downloads (Pure)

Single-cell transcriptomics of mouse spinal cord ependymal cells
Rodrigo Albors, A. (Creator) & Storey, K. (Creator), posit, 2022
https://ependymalcell.shinyapps.io/ependymal_atlas/ and 2 more links, https://doi.org/10.1101/2022.03.07.483249, https://github.com/aidarodrigo/ependymal_cell (show fewer)
Dataset

Cite this

@misc{2a285b57756243ef85fb9e9acb4e0769,

title = "Code for the analysis of scRNA-seq data from spinal cord ependymal cells of young and aged mice",

abstract = "The adult spinal cord stem cell potential resides within the ependymal cell population and declines with age. Ependymal cells are, however, heterogeneous and the biological diversity this represents and how it changes with age remain unknown. This repository contains the code used to analyse single-cell RNA sequencing data of spinal cord ependymal cells from adult and aged mice that led us to uncover the profiles of all known ependymal cell subtypes and new immature and mature cell states. The R scripts are numbered based on which figure the analyses relate to.",

keywords = "spinal cord, ependymal cell, mouse, ageing, scRNA-seq, Smart-seq2, 10x Genomics",

author = "\{Rodrigo Albors\}, Aida and Gail Singer and Enric Llorens-Bobadilla and Jonas Fris{\'e}n and May, \{Andrew P.\} and Ponting, \{Chris P.\} and Kate Storey",

year = "2022",

month = dec,

day = "19",

doi = "10.5281/zenodo.7459070",

language = "English",

publisher = "Zenodo",

address = "Switzerland",

}

TY - ADVS

T1 - Code for the analysis of scRNA-seq data from spinal cord ependymal cells of young and aged mice

A2 - Rodrigo Albors, Aida

A2 - Singer, Gail

A2 - Llorens-Bobadilla, Enric

A2 - Frisén, Jonas

A2 - May, Andrew P.

A2 - Ponting, Chris P.

A2 - Storey, Kate

PY - 2022/12/19

Y1 - 2022/12/19

N2 - The adult spinal cord stem cell potential resides within the ependymal cell population and declines with age. Ependymal cells are, however, heterogeneous and the biological diversity this represents and how it changes with age remain unknown. This repository contains the code used to analyse single-cell RNA sequencing data of spinal cord ependymal cells from adult and aged mice that led us to uncover the profiles of all known ependymal cell subtypes and new immature and mature cell states. The R scripts are numbered based on which figure the analyses relate to.

AB - The adult spinal cord stem cell potential resides within the ependymal cell population and declines with age. Ependymal cells are, however, heterogeneous and the biological diversity this represents and how it changes with age remain unknown. This repository contains the code used to analyse single-cell RNA sequencing data of spinal cord ependymal cells from adult and aged mice that led us to uncover the profiles of all known ependymal cell subtypes and new immature and mature cell states. The R scripts are numbered based on which figure the analyses relate to.

KW - spinal cord

KW - ependymal cell

KW - mouse

KW - ageing

KW - scRNA-seq

KW - Smart-seq2

KW - 10x Genomics

U2 - 10.5281/zenodo.7459070

DO - 10.5281/zenodo.7459070

M3 - Software

PB - Zenodo

ER -

Code for the analysis of scRNA-seq data from spinal cord ependymal cells of young and aged mice

Abstract

Keywords

Access to Document

Fingerprint

Research output

An ependymal cell census identifies heterogeneous and ongoing cell maturation in the adult mouse spinal cord that changes dynamically on injury

Datasets

Single-cell transcriptomics of mouse spinal cord ependymal cells

Cite this