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Sample GSM2048226 Query DataSets for GSM2048226
Status Public on Jun 06, 2018
Title unfertilized eggs_PolyA minus
Sample type SRA
 
Source name unfertilized eggs
Organism Drosophila melanogaster
Characteristics developmental stage: unfertilized egg
genotype: y w
rna fraction: rRNA-depleted total RNA, polyA-minus fraction
Extracted molecule total RNA
Extraction protocol RNA was extraction in accordance to Trizol protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Sequenced and aligned reads were passed through a Perl filtering algorithm to determine if they were internal to an intron or overlapped with the 5' or 3' junction of each intron in the Drosophila melanogaster (dm3) genome. Each intron was indexed and reads that aligned to the index were parsed and counted to determine molecule size. Sequence information was then extracted for each putative molecule, and pairwise aligned using Blast (43). Positive Blast hits were then aligned with Clustalw2 to determine actual sequence alignment for further downstream analysis (44).
Genome_build: dm3
Supplementary_files_format_and_content: readcounts.xlsx contains the read counts of the individual sisRNA candidates
 
Submission date Jan 27, 2016
Last update date May 15, 2019
Contact name Jun Wei Pek
E-mail(s) junwei@tll.org.sg
Phone +6568727818
Organization name Temasek Life Sciences Laboratory
Street address 1 Research Link National University of Singapore
City Singapore
ZIP/Postal code 117604
Country Singapore
 
Platform ID GPL13304
Series (1)
GSE77294 RNA-seq of Drosophila unfertilized eggs
Relations
BioSample SAMN04443343
SRA SRX1549317

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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