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Sample GSM610967 Query DataSets for GSM610967
Status Public on Jun 10, 2011
Title Round spermatids
Sample type SRA
 
Source name male germ cell
Organism Mus musculus
Characteristics strain: ICR
tissue: testis
cell type: Round spermatids
Treatment protocol total RNA was size selected (18-36nt)
Extracted molecule total RNA
Extraction protocol Illumina small RNA library preparation kit. Ten micrograms of total RNAs were separated by 15% denaturing PAGE gel, visualized by SYBR-gold staining, and small RNAs of 18-36 nt were gel-purified.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina Genome Analyzer
 
Description small RNA sequencing; sample 3
Data processing After clipping the adapter sequences, removing reads with Ns, reads were aligned to the reference genome (mm9) allowing zero mismatches by PASS [PASS: a program to align short sequences. PMID: 19218350. http://pass.cribi.unipd.it/cgi-bin/pass.pl].
 
Submission date Oct 20, 2010
Last update date May 15, 2019
Contact name Chunsheng Han
E-mail(s) hancs@ioz.ac.cn
Phone 86-10-64807105
Organization name Chinese Academy of Sciences
Department Institute of Zoology
Lab State Key Laboratory of Reproductive Biology
Street address 1-5 Beichen West Road, Chaoyang District
City Beijing
State/province Beijing
ZIP/Postal code 100101
Country China
 
Platform ID GPL9185
Series (1)
GSE24822 Small non-coding RNA expression in murine germ cells
Relations
SRA SRX029054
BioSample SAMN00116350

Data table header descriptions
SEQUENCE
COUNT

Data table
SEQUENCE COUNT
CCTCTGATGACAGTTGGGCTAGGCACCAAT 4
GACATGACGAGAAGAGGGCGAATCTCTAGT 6
CAAGAATGTTCTGCTGGCATGTCCC 2
CAGGAAACTCAGAAATGGTCA 1
TAAAAATGCACAGGGTACAACTTGGCTT 1
TAGCTAAGCAGTTCTGCAAATTGGGCA 5
TAAGAGATGATGGCTCAGTAGTTAAGAGTA 1
AAACAGAAACTTAGGCCTAGTCTCCC 3
TATTTTGGCTTATGGATCCAGAGGGA 14
ATTGACTGGACGGCACAAACTGGCC 1
TATTTAGTGATGACCAGCTCAGG 1
TAAGCTGAACTCCCCAGTGGATACGGTCAT 26
TTCTCAAAGTCTCAAAATGCCATGAGGAGA 4
CTCTCTTCCCTGCCTCACTGGAAGACT 1
TACCTCCACGAGGATGGTGATACAGTGCCA 4
TGTGGATCTTTAGGAGGGTGGCATGCCCAC 1
TTCGAGACAACCTCAACTGGACTCAGGA 2
TTTTAAGGACACTGCATGCTTGTTGGT 3
TATGTTCTGGAATAGAGATGAGATGG 1
TAGTGACGCGCATGAATGGATGAAC 11

Total number of rows: 876408

Table truncated, full table size 25324 Kbytes.




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

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