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Sample GSM442933 Query DataSets for GSM442933
Status Public on Dec 01, 2009
Title Root_+Pi_sRNASeq
Sample type SRA
 
Source name root
Organism Arabidopsis thaliana
Characteristics strain: Col0
Treatment protocol Seventeen-day-old seedlings were subjected for phosphate starvation treatment by transferring them from 250 μM KH2PO4 (+Pi) into 0 μM KH2PO4 (-Pi) nutrient solution. Control samples were maintained under 250 μM KH2PO4 (+Pi) nutrient solution. Roots and shoots were collected separately after 5-day treatment.
Growth protocol Nine-day-old Arabidopsis seedlings grown on half-strength modified Hoagland nutrient solution containing 250 μM KH2PO4 (+Pi) and 1% sucrose were transferred to a hydroponic culture system with half-strength modified Hoagland nutrient solution containing 250 μM KH2PO4 for additional growth of 8 days. All plants were grown at 22oC under a 16-hr photoperiod with cool fluorescent light at 100 to 150 μE.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated with the use of TRIzol reagent (Invitrogen, Carlsbad, CA) following the manufacturer's instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina Genome Analyzer
 
Description Treatment: 250uM KH2PO4 for 5 days
Data processing Processed data files contain the perfectly mapped reads with 5' and 3' adapters removed (reads were mapped on the TAIR8 genome). Same reads are sorted together and the numbers of repetitivity are indicated
 
Submission date Aug 20, 2009
Last update date May 15, 2019
Contact name Li-Ching Hsieh
Organization name Academia Sinica
Department Biodiversity Research Center
Lab Li Lab
Street address 128 Academia Road, Section 2
City Taipei
ZIP/Postal code 115
Country Taiwan
 
Platform ID GPL9062
Series (1)
GSE17741 Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing
Relations
SRA SRX014815
BioSample SAMN00007001

Data table header descriptions
SEQUENCE
COUNT

Data table
SEQUENCE COUNT
CAAACCTTGCAGTTTA 1
AGAATAATGTAGGTAA 1
ACAGATTTGGACTCTA 1
AGGGGAACCTGTGGCT 6
AGACGACTGACGCTGT 1
AGTGATTACCGAGCTT 1
TATCGAGACTGACCGG 1
GTGGGCGTGCCGGAGT 2
AGAATGAGCAATACCG 1
GGTTCAATCGGATCGA 1
AACTGAACGCGTTTGG 1
ATTTTCTAAGATCTTA 3
TGCTGCAGTAGATTCG 1
TGAAGTCGGCAGTTGA 1
GAGATTAGTGGAAGGA 1
AGAGACTCCGAGACGT 1
AGGGACGTTAGAGAAG 1
GACAAAGGAAAAGGTT 1
TGGGTCGTTGCTGAAA 1
GATGTCTTGGGCTGCA 1

Total number of rows: 701277

Table truncated, full table size 17637 Kbytes.




Supplementary data files not provided
SRA Run SelectorHelp
Processed data included within Sample table
Raw data are available in SRA

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