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Sample GSM7885816 Query DataSets for GSM7885816
Status Public on Jan 29, 2024
Title snap33_5d_3
Sample type SRA
Source name snap33_5d_3
Organism Arabidopsis thaliana
Characteristics genotype: snap33 - mutant=knock-out,insertional mutagen,T-DNA-
developmental stage: planting-date=29-MAR-21,harvest-date=05-APR-21
tissue: seedling,whole plant
Treatment protocol no treatment
Growth protocol Long day conditions: 16 h light from 6 am to 10 pm (½ MS solid media prepared with Murashige Skoog Basal Salts (Sigma M6899), 0.05% MES hydrate (Sigma M8250), pH adjusted to 5.70 with KOH (5 M), 0.5% agar type E (Sigma A4675). Autoclaved 60% hygrometry 23°C 180 µmol.m-².s-1)
Extracted molecule total RNA
Extraction protocol snap33_5d_3(35ug)
rna_selection:selection polyA, single, stranded:yes, Protocol:truseq-stranded-mrna-sample-prep-guide-15031047-E.pdf
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Data processing Genome_build: genome of Arabidopsis thaliana TAIR10
genome mapping and counts of reads by gene locus are done with STAR/HTSeqcount; exact multihits are removed and count only consistent PE reads (in PE case).
Supplementary_files_format_and_content: type:count file (txt); content:GeneID,counts
Submission date Nov 07, 2023
Last update date Jan 29, 2024
Contact name Véronique BRUNAUD
Organization name INRA - CNRS - UPSUD
Lab IPS2
Street address rue Noetzlin
City Gif-sur-Yvette
ZIP/Postal code 91190
Country France
Platform ID GPL19580
Series (1)
GSE247242 rna-seq snap33-1 vs wt -Description of Arabidopsis thaliana t-SNARE SNAP33
BioSample SAMN38148860
SRA SRX22404035

Supplementary file Size Download File type/resource
GSM7885816_htseqcount_snap33_5d_3.txt.gz 114.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA

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