title: GSM1703560: Mock 3; Arabidopsis thaliana; RNA-Seq
library_construction_protocol: Total RNA was extracted from seedlings as described by Ferrari et al. (2007). Briefly, the protocol for treating plants was similar to that used in growth inhibition studies with the difference that 12 seeds were placed in each well for germination. For each biological replicate, plants were harvested from 3 wells, rinsed in MQ and blotted dry before freezing in liquid nitrogen. The plant material was crushed by using metal beads in a shaker. The RNA was extracted using the GeneJET Plant RNA Purification mini kit (ThermoScientific) following the manufacturer’s protocol. Sample quality was assessed by gel electrophoresis and measured using a NanoDrop (ThermoScientific). 2 µg of total RNA was treated with DNaseI, Rnase-free (ThermoScientific) and used for cDNA synthesis using Maxima Reverse Transcriptase and Ribolock Rnase Inhibitor (ThermoScientific) following the manufacturer’s protocol. Primers used for cDNA synthesis were random hexamers and oligo dT primers. The library was constructed using the standard protocols for the ABI SOLiD system. Two pools containing all samples were made and run on seperate lanes.
attributes.tag: GEO Accession
attributes.value: GSM1703560