Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 4
Release date: Aug 31 2017
Last update date: Jan 24 2018
Access: Public
Chemicals: Calcium, Hydrogen, Potassium, Sodium
Dataset link Regenerative adaptation to electrochemical perturbation in planaria: a molecular analysis of physiological plasticity

Experimental Protocol


Two Control (WT) and two BaCl2 treated. Total RNA was extracted from wild type D. japonica, D. japonica starved for 35 days, and D. japonica with BaCl2-immune heads. Three biological replicates were obtained from each treatment, with 25 worms per replicate. For the RNAseq experiment, worms were kept in BaCl2 for 35 days, when insensitive heads had fully regenerated. Heads were then amputated, and RNA extracted. Total RNA from whole worms, and worm head fragments was extracted using Trizol (Ambion/ThermoFisher) purification (0.5mL/25 worms). Samples were suspended in two washes of chloroform, and a final isopropanol wash was carried out after pelleting and removal of phenol-chloroform phase. Total RNA was pelleted and then suspended in 80% EtOH. Samples were then shipped to the MIT sequencing core. Quality control for RNA was conducted on an 2100 Agilent Bioanalyzer and RNA was deemed high quality.

Repositories


GEO

GSE98084

ENA

SRP104988

BioProject

PRJNA383937

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Contact


Christopher Martyniuk