PRJNA275997 - Roots (drought conditions)

BioSamples
Cross Reference
Publication
Summary
BioSamples
NameTissueTreatmentDescription
SRS851883rootSevere drought conditionsThis biomaterial: SRS851883, was created for the analysis: PRJNA275997 - Roots (drought conditions)
SRS851885rootWell watered conditionsThis biomaterial: SRS851885, was created for the analysis: PRJNA275997 - Roots (drought conditions)
SRS851887rootMedium drought conditionsThis biomaterial: SRS851887, was created for the analysis: PRJNA275997 - Roots (drought conditions)
Publication
Magalhães AP, Verde N, Reis F, Martins I, Costa D, Lino-Neto T, Castro PH, Tavares RM, Azevedo H. RNA-Seq and Gene Network Analysis Uncover Activation of an ABA-Dependent Signalosome During the Cork Oak Root Response to Drought.. Frontiers in plant science. 2015; 6:1195.
Summary
Name
PRJNA275997 - Roots (drought conditions)
Description

"Sequences from 3 different libraries, concerning 3 different water regiments."

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
PRJNA275997 - Roots (drought conditions)
Program Version
GMAP-2018-07-04, SRAtoolkit-2.9.4, SubRead-v1.6.3, TagCleaner-0.16, Trimmomatic-0.38
Data Source
Source Name
: PRJNA275997
Source URI
: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA275997