Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Remapping the SRA: Drosophila melanogaster RNA-Seq data from the Sequence Read Archive

ABSTRACT: Remapping the SRA: Drosophila melanogaster RNA-Seq data from the Sequence Read Archive

PROVIDER: PRJNA481740 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Remapping the SRA: Drosophila melanogaster RNA-Seq data from the Sequence Read Archive

Project description:The sequence read archive (SRA) contains over 52 terabases or 482 billion reads from Drosophila melanogaster (as of June 2018). These data are massively underused by the community and include 14,423 RNA-Seq samples, that is roughly 7 times the size of modENCODE. Currently the major challenge is finding high quality datasets that are suitable for inclusion in new studies. To help the community overcome this hurdle, we re-processed all D. melanogaster RNA-Seq SRA experiments (SRXs) using an identical workflow. This workflow uses a data driven approach to identify technical metadata (i.e., strandedness and layout) for each sample in order to optimize mapping parameters. The workflow generates QC metrics, coverage tracks based on the dm6 assembly, and calculates gene level, junction level, and intergenic counts against FlyBase r6.11. This resource will allow any researcher to visualize browser tracks for any publicly available dataset, quickly identify high quality data sets for use in their own research, and download identically processed counts tables. There is a treasure trove of underused data sitting in the SRA and this work addresses the first challenge to make data integration a common laboratory practice.

2018-07-18 | GSE117217 | GEO

Drosophila melanogaster short read RNA

2008-11-04 | GSE13441 | GEO

Drosophila melanogaster short read RNA

Project description:Drosophila melanogaster RNA sequencing with Illumina Genome Analyzer. High-throughput sequencing of Drosophila melanogaster RNAs. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf 5 Samples: Single Stranded cDNA, Oligo-DT Primed, run using a 1, 2 and 4 p-mol concentration, no replicates. Double Stranded cDNA, Random Primed, run using a 2 p-mol concentration, 2 replicates.

2008-11-04 | E-GEOD-13441 | biostudies-arrayexpress

Drosophila melanogaster small RNA sequence: female heads

Project description:High-throughput sequencing of Drosophila melanogaster small RNAs. total RNA, ~18-26nt RNAs isolated using PAGE, ligation to adapters requires 5' monophosphate and 3' OH Keywords: High-throughput solexa sequencing

2008-04-23 | GSE10790 | GEO

mRNA sequence data from anterior ovarioles of w1118 virgin females of Drosophila melanogaster

Project description:Transcriptional profiling of anterior ovarioles (germaria and round previtellogenic egg chambers) of w1118 virgin females of Drosophila melanogaster 1 to 8 days post eclosion.

2016-04-04 | GSE79550 | GEO

Drosophila melanogaster small RNA sequence from 14 libraries

Project description:High-throughput sequencing of Drosophila melanogaster small RNAs. total RNA, ~18-26nt RNAs isolated using PAGE, ligation to adapters requires 5' monophosphate and 3' OH

2008-06-02 | GSE11624 | GEO

Thermal acclimation in Drosophila melanogaster

Project description:Thermal acclimation study on Drosophila melanogaster reared at 3 different temperatures (12, 25, and 31oC). The proteomic profiles of D. melanogaster under these different temperatures were analyzed and compared using label-free tandem mass spectrometry.

2016-03-15 | PXD003755 | Pride