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Sample GSM442932 Query DataSets for GSM442932
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: 0uM 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 National Chung Hsing University
Department Graduate Institute of Genomics and Bioinformatics
Lab Hsieh Lab
Street address 145 Xingda Rd.
City Taichung
ZIP/Postal code 402
Country Taiwan
 
Platform ID GPL9062
Series (1)
GSE17741 Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing
Relations
SRA SRX014814
BioSample SAMN00007000

Data table header descriptions
SEQUENCE
COUNT

Data table
SEQUENCE COUNT
AGGGGAACCTGTGGCT 8
ATTCAAAAAAGTATCG 1
TACAGAACCAGGTACT 1
GTGGGCGTGCCGGAGT 9
AAGCGGTAGAATAGAT 1
CGGTCCCCACAGACGG 2
ATTTTCTAAGATCTTA 1
GAGTCGTTCTGTTGCA 1
TTCGTGGACAAATCTT 1
TGGGACGGAGAAAGTA 1
GAGAGTTGGAATTTGG 1
AGCGGTGGAGAGATGA 1
AACGGGATGGTACTCA 1
TCCGATGTCGTCCAGA 1
GAGGAGCTCAAGGAAG 1
GATGTCTTGGGCTGCA 2
GCCGGAGGTGGCTGGA 1
AGGGGACTGTACCATC 2
CGAAACCCTCGTCTTG 1
CCCCAGTGGAGTCGCC 1

Total number of rows: 611204

Table truncated, full table size 15385 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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