GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM2373908 Query DataSets for GSM2373908
Status Public on Mar 30, 2017
Title 0-2 hr embryo Rnase R
Sample type SRA
Source name 0-2 hr embryo Rnase R
Organism Drosophila melanogaster
Characteristics genotype: y w
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
Description rRNA-depleted Rnase treated total RNA
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
Submission date Nov 03, 2016
Last update date May 15, 2019
Contact name Jun Wei Pek
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)
GSE89496 RNA-seq of Drosophila 0-2 hr embryos Rnase R
Reanalyzed by GSM3282206
BioSample SAMN05977311
SRA SRX2324002

Supplementary file Size Download File type/resource
GSM2373908_intron_reads_counts.xlsx 10.9 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap