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Sample GSM1704896 Query DataSets for GSM1704896
Status Public on Jun 05, 2015
Title YbCLIP in OSCs - rep1
Sample type SRA
 
Source name Ovarian Somatic Cells (OSC), Yb CLIP
Organism Drosophila melanogaster
Characteristics cell line: OSC
cell type: ovarian somatic cell line
variation: untreated
ip antibody: Yb antibody (Murota et al., 2014)
Extracted molecule total RNA
Extraction protocol For CLIP, anti-Yb antibody (Murota et al., 2014 [PMID 24953657]) was used to immunopurify Yb from OSC after irradiation by UV (254 nm) for crosslinking. RNAs within the immunoprecipitates were extracted for library construction as described previously (Murota et al., 2014).
For CLIP-seq, library was constructed as described previously (Murota et al., 2014).
 
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina MiSeq
 
Description OSC cell line is described in Saito et al., Nature 2009 [PMID 19812547]
Data processing Library strategy: CLIP-Seq
For YbCLIP tags, reads were processed as described previously (Murota et al., 2014).
Genome_build: Release 5 (dm3)
Supplementary_files_format_and_content: CLIP-seq: Unique CLIP tag sequences with length in the range of 30-50nt.
Supplementary_files_format_and_content: Piwi-associated small RNA-seq (RIP-seq): Small RNA sequences and their read counts for small RNAs with length in the range of 20-30nt and have read count over 100.
 
Submission date Jun 05, 2015
Last update date Jul 03, 2021
Contact name Yuka W. Iwasaki
E-mail(s) iwasaki@keio.jp
Organization name Keio University School of Medicine
Department Department of Molecular Biology
Lab Siomi Lab
Street address 35 Shinanomachi, Shinjuku-ku,
City Tokyo
ZIP/Postal code 160-8582
Country Japan
 
Platform ID GPL16479
Series (1)
GSE69625 Somatic Primary piRNA Biogenesis Driven by Cis-Acting RNA Elements and Trans- Acting Yb
Relations
BioSample SAMN03764039
SRA SRX1051751

Supplementary file Size Download File type/resource
GSM1704896_YbCLIP1.txt.gz 20.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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