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Sample GSM2829820 Query DataSets for GSM2829820
Status Public on Mar 01, 2018
Title WT Rep1
Sample type SRA
 
Source name inflorescence
Organism Arabidopsis thaliana
Characteristics strain: Columbia (Col)
tissue: inflorescence
genotype: WT (Col)
Treatment protocol none
Growth protocol 16 hour light; 8 hour dark; at 22 oC
Extracted molecule total RNA
Extraction protocol Flower inflorescences were collected and total RNA was extracted by Trizol. Illumina TruSeq Small RNA Sample Prep Kits was used with 1 ug of total RNA for the construction of sequencing libraries.
Illumina small RNA library protocol
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina NextSeq 500
 
Description small RNA
Data processing Illumina software used for basecalling.
Sequenced reads were trimmed for adaptor sequence then mapped to TAIR10 whole genome using bowtie bowtie -v 0 -S -a --best --strata
Genome_build: TAIR10
Supplementary_files_format_and_content: Space-delimited plain text files: the first column is for MicroRNA gene IDs and the second column for reads counts
 
Submission date Oct 24, 2017
Last update date May 15, 2019
Contact name Chi Zhang
E-mail(s) czhang5@unl.edu
Organization name University of Nebraska - Lincoln
Street address 1901 Vine Street
City Lincoln
State/province NE
ZIP/Postal code 68588
Country USA
 
Platform ID GPL19580
Series (1)
GSE106110 The effect of MAC3 and MAC5A on small RNA accumulation
Relations
BioSample SAMN07830286
SRA SRX3318009

Supplementary file Size Download File type/resource
GSM2829820_col-1.txt.gz 1.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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