PRJNA577816 - Leaves (Heat/Cold)

Summary
Resource Type
Analysis
Name
PRJNA577816 - Leaves (Heat/Cold)
Description

"Quercus suber specimens were subjected to cold/heat acclimation and shock. The transcriptome was obtained from leaf samples."

FASTQ files were obtained from the NCBI database using the SRAtoolkit-2.9.4. Tags were removed using TagCleaner-0.16 and high quality reads were filtered using Trimmomatic-0.38. Mapping to the reference genome of Q.suber (NCBI Sequence Read Archive SRP111728 (2017)) was performed using Gmap-2018-07-04 and gene expression in TPM (transcripts per million) was calculated using the counts obtained from featureCounts included in SubRead-v1.6.3.

Program, Pipeline, Workflow or Method Name
PRJNA577816 - Leaves (Heat/Cold)
Program Version
Gmap-2018-07-04, SRAtoolkit-2.9.4, SubRead-v1.6.3, TagCleaner-0.16, Trimmomatic-0.38
Date Performed
Wednesday, October 30, 2019 - 17:56
Data Source
BioSamples
NameTissueTreatmentDescription
SRR10335950LeafCold acclimationThis biomaterial: SRR10335950, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)
SRR10335947LeafControl 25C (cold assay)This biomaterial: SRR10335947, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)
SRR10335946LeafControl 25C (heat assay)This biomaterial: SRR10335946, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)
SRR10335949LeafHeat acclimationThis biomaterial: SRR10335949, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)
SRR10335945LeafHeat shock (42C)This biomaterial: SRR10335945, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)
SRR10335948LeafCold shock (5C)This biomaterial: SRR10335948, was created for the analysis: PRJNA577816 - Leaves (Heat/Cold)