Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Drosophila melanogaster

ABSTRACT: Genome pool-sequencing of 30 DGRP strains

PROVIDER: PRJNA632498 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11789486_1.fastq.gz	Fastqsanger.gz
	SRR11789486_2.fastq.gz	Fastqsanger.gz
	SRR11789487_1.fastq.gz	Fastqsanger.gz
	SRR11789487_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Genetic basis of transcriptome diversity in Drosophila melanogaster

Project description:This project uses pooled poly A (+) RNA from the DGRP to derive transcript models specific to DGRP. The derived transcript models provide the basis for quantifying gene expression in the DGRP lines using genome tiling arrays.

2015-10-01 | GSE67505 | GEO

Drosophila melanogaster whole embryo RNA-Seq experiments during embryogenesis

Project description:Sequencing of mRNAs of 22 wild type strains from the Drosophila Genetic reference Panel (DGRP) at embryonic time point 10-12 hrs after egg laying was performed. ~100 embryos were pooled for each biological sample prior to library preparation.

2017-01-10 | E-MTAB-4723 | biostudies-arrayexpress

Drosophila melanogaster whole embryo 3'-Tag-Seq experiments during embryogenesis

Project description:Sequencing of the most 3' end of mRNAs (3'-Tag-Seq) of 82 wild type strains from the Drosophila Genetic reference Panel (DGRP) during embryogenesis was performed. Three different time points (2-4hrs, 6-8hrs and 10 to 12rs after laying) were assayed. 14 biological replicates were performed from independent embryo collections.

2017-01-10 | E-MTAB-4722 | biostudies-arrayexpress

Whole genome sequencing of a panel of genetically diverse crosses of Drosophila melanogaster

Project description:Whole genome sequencing of 8 F1 Drosophila lines along with the two parental lines for one of the F1 genotypes. Data were sequenced to verify previously published genome sequences (parental lines: DGRP, maternal line: PMID31308546) and to identify potentially unbalanced SNPs within the data that might confound allele-specific measurements in the F1 lines.

2020-12-04 | E-MTAB-8877 | biostudies-arrayexpress

mRNA sequence data of individual Drosophila melanogaster male and female flies from 16 Drosophila Genetic Reference Panel lines reared in replicated environments

Project description:Our primary objective was to characterize the amount of variation in transcript abundance among individual flies with identical genotypes. We also wanted to determine which analysis methods would be optimal for RNA-Seq data. To meet these objectives, we performed transcriptional profiling of whole adult individuals from 16 Drosophila Genetic Reference Panel (DGRP) lines. We quantified differential expression among genotypes, environments, and sexes. We randomly chose 16 DGRP lines for this experiment: DGRP-93, DGRP-229, DGRP-320, DGRP-352, DGRP-370, DGRP-563, DGRP-630, DGRP-703, DGRP-761, DGRP-787, DGRP-790, DGRP-804, DGRP-812, DGRP-822, DGRP-850, and DGRP-900. We collected 8 virgin male and 8 virgin female flies from the 16 DGRP genotypes in three replicated environments to produce RNA sequence profiles. We controlled the environmental conditions in the following ways. We seeded the fly cultures with 5 male and 5 female parents. We reared the progeny in a single incubator on standard Drosophila food (http://flystocks.bio.indiana.edu/Fly_Work/media-recipes/bloomfood.htm) at 25Â°C, 60% humidity, and a 12:12-hour light:dark cycle. We collected and maintained male and female virgins at 20 flies to a same-sex vial for four days prior to RNA extraction to control for social exposure. Flies were frozen for RNA extraction at the same circadian time (1:00 pm) in 96-well plates. PolyA RNA stranded libraries were prepared by modifying an existing protocol. ERCC (External RNA Controls Consortium, SRM2374, beta version, pools 78A/78B) sequences were added during the library preparation as a control. For some samples >1 library was generated to check technical variation. We performed multiplexed single-end 76 bp sequencing on an Illumina HiSeq2000. Reads were mapped to FlyBase release 5 version 57 and release 6 version 01 of the Drosophila melanogaster genome and the ERCC sequences. Mapped reads were counted at the gene level.

2015-12-21 | E-GEOD-60314 | biostudies-arrayexpress

Drosophila melanogaster

Project description:Ssk-FB4s in DGRP population

| PRJNA629468 | ENA

Drosophila melanogaster

Project description:Deep sequencing of mitochondrial genomes in the DGRP

| PRJNA504538 | ENA

Quantification of RNA editing in the Drosophila Genetic Reference Panel

Project description:We report the application of mmPCR-seq to male whole body samples from 131 strains of the DGRP. We quantified RNA editing at 605 different loci using a microfluidic multiplex PCR method coupled with deep sequencing.

2015-08-06 | GSE67082 | GEO

Drosophila melanogaster

Project description:PacBio for six Drosophila melanogaster DGRP lines

| PRJNA574592 | ENA

Drosophila melanogaster

Project description:Variation in mitochondrial genomes in the DGRP

| PRJNA504544 | ENA