U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SRX22090544: GSM7840816: refr_6_hpa_D; Xenopus laevis; RNA-Seq
1 ILLUMINA (NextSeq 500) run: 5.7M spots, 869.5M bases, 293.9Mb downloads

External Id: GSM7840816_r1
Submitted by: Laboratory of Gene Expression, Institute of Biotechnology, Czech Academy of Science, v.v.i.
Study: Characterization of regeneration initiating cells during Xenopus laevis tail regeneration [bulk RNA-Seq 2]
show Abstracthide Abstract
In this experiment, we revealed the critical steps for regeneration initiation. We discovered Regeneration Initiating Cells (RICs) using single cell and spatial transcriptomics of the regenerating Xenopus laevis tail. RICs are formed transiently from the basal epidermal cells and are critical for the modification of the surrounding extracellular matrix to allow for migration of other cell types that promote regeneration. Absence or deregulation of RICs leads to excessive extracellular matrix deposition and regeneration defects. Overall design: Bulk RNA-Seq analysis was done to analyze the temporal changes in gene expression during the regeneration and refractory periods of 0, 0.5, 6 hpa and 3 dpa.
Sample: refr_6_hpa_D
SAMN37810397 • SRS19156943 • All experiments • All runs
Organism: Xenopus laevis
Library:
Name: GSM7840816
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: All samples were stored at -80°C. Total RNA was extracted from 20 embryos per sample at the regenerative stage. Total RNA was extracted using TriReagent extraction and LiCl precipitation (Sigma) according to the manufacturer's instructions. The concentration of total RNA was determined using a spectrophotometer (Nanodrop 2000; ThermoFisher Scientific), and the quality of RNA was assessed using a Fragment Analyzer (Agilent, Standard Sensitivity RNA analysis kit, DNF-471). 100 ng of total RNA was used for library preparation using the Lexogen SENSE Total RNA-Seq Library Prep Kit. Library quality was tested by capillary electrophoresis on Fragment Analyzer (Agilent, NGS High Sensitivity kit DNF-474). The libraries were pooled and sequenced using Illumina NextSeq 500, 2x76 bp.
Runs: 1 run, 5.7M spots, 869.5M bases, 293.9Mb
Run# of Spots# of BasesSizePublished
SRR263841425,720,293869.5M293.9Mb2023-11-30

ID:
30022344

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...