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Sample GSM7008680 Query DataSets for GSM7008680
Status Public on Jan 31, 2023
Title LSWT11 early pod RNA [Sample_1348_LIB14298_LDI12360]
Sample type SRA
 
Source name early pod stages 1&2
Organism Lathyrus sativus
Characteristics tissue: early pod stages 1&2
genotype: LSWT11
treatment: sand/vermiculite/perlite, growth chamber
time: 3 months after imbibing
Extracted molecule total RNA
Extraction protocol Sigma Spectrum Plant Total RNA kit
TruSeq RNA
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description part of multi-tissue transcriptome, used for read counting
Data processing FastQC
Kontaminant pipeline (removing contaminants using sortmerna v2.0)
Trimmed sequence reads (trim_galore v 0.4.1)
read mapping using Kallisto
Assembly: Rbp1.0 grasspea assembly that is published with manuscript
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
 
Submission date Jan 29, 2023
Last update date Jan 31, 2023
Contact name Martin Vickers
E-mail(s) martin.vickers@jic.ac.uk
Organization name John Innes Centre
Street address Colney Ln
City Norwich
State/province Norfolk
ZIP/Postal code NR4 7UH
Country United Kingdom
 
Platform ID GPL33069
Series (1)
GSE223956 Sequence data for annotation and scaffolding of the Lathyrus sativus LS007 Rbp1.0 genome assembly
Relations
BioSample SAMN32953638
SRA SRX19210595

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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