Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Drosophila melanogaster

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

PROVIDER: PRJNA258012 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1543140.fastq.gz	Fastqsanger.gz
	SRR1543150.fastq.gz	Fastqsanger.gz
	SRR1543160.fastq.gz	Fastqsanger.gz
	SRR1543170.fastq.gz	Fastqsanger.gz
	SRR1543180.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 952

Similar Datasets

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

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

2015-12-21 | GSE60314 | GEO

Expression analysis of D. melanogaster selected for contrasting life histories

Project description:Study of transcriptome level changes in Drosophila melanogaster populations with divergent reproduction and lifespan patterns A 120 chip study using mRNA recovered from unmated female fruit flies 35 generations after selection for contrasting life history traits. The study includes samples from five age classes and two tissues of flies derived from three replicated populations.

2012-05-22 | E-GEOD-38106 | biostudies-arrayexpress

Comparative genomic hybridization by tiling array of Drosophila melanogaster from different geographic locations

Project description:Population samples of Drosophila melanogaster were hybridized to a genomic tiling array: separetely from 2 US localities, 3 Caribbean localities, 1 West Africa (Cameroon) locality and 1 Zimbabwe locality. We replicated each locality 3 times by pooling individual flies for each hybridization experiment replicate.

2010-10-01 | E-MEXP-2667 | biostudies-arrayexpress

RNA-sequencing of the adult female fly guts (w1118) with and without oral infection with Pseudomonas entomophila (Pe) or Erwinia carotovora carotovora 15 (Ecc15)

Project description:Adult female Drosophila melanogaster flies from the w1118 background were fed sucrose, Pseudomonas entomophila (Pe), or Erwinia carotovora carotovora 15 (Ecc15).

2019-10-07 | GSE128489 | GEO

Drosophila melanogaster gene expression changes after spaceflight.

Project description:Gene expression levels were determined in 3rd instar and adult Drosophila melanogaster reared during spaceflight, to elucidate the genetic and molecular mechanisms underpinning the effects of microgravity on the immune system. The goal was to validate the Drosophila model for understanding alterations of innate immune responses in humans due to spaceflight. Five containers of flies, with ten female and five male fruit flies in each container, were housed and bred on the space shuttle (average orbit altitude of 330.35 km) for 12 days and 18.5 hours, with a new generation reared in microgravity. RNA was extracted on the day of shuttle landing from whole body animals (3rd instar larvae and adults), hybridized to Drosophila 2.0 Affymetrix genome arrays, and the expression level of all genes was normalized against the gene expression level from the corresponding developmental stage animals raised on ground. Spaceflight altered the expression of larval genes involved in the maturation of plasmatocytes (macrophages) and their phagocytic response, as well as the level of constitutive expression of pattern recognition receptors and opsonins that specifically recognize bacteria, and of lysozymes, antimicrobial peptide pathway and immune stress genes, hallmarks of humoral immunity.

2011-09-01 | GSE23880 | GEO

Fly circadian clock, photoreceptors and fly hemolymph

Project description:Influence of diet and neuronal clk (clock) activity on hemolymph proteomics. We have shown that as photoreceptors die (in the fly) they necrose, which results in their intercellular contents leaking into the hemolymph. We hypothesize that this process is regulated by diet and circadian clock control. Analysis of differential protein expression in the hemolymph from flies reared on a high protein diet. Comparison of flies with and without a functional circadian clock within their photoreceptors. Species/Strain: Drosophila, Elav-GeneSwitch-GAL4>UAS-Clk-DN1 (+/- RU486), female

2021-01-30 | MSV000086781 | MassIVE

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

Effects of altered levels of Cyp6g1 and of Dhr96 on gene expression in Drosophila

Project description:This SuperSeries is composed of the following subset Series: GSE27344: Expression data from transgenic Drosophila melanogaster adults which contain a knockdown effector of cyp6g1, compared to control flies GSE27345: Expression data from Drosophila melanogaster adults which contain transgenes to deliver a knockdown effect of Dhr96 expression, or over-expression of Dhr96, compared to control flies. Refer to individual Series

2011-02-17 | E-GEOD-27376 | biostudies-arrayexpress

Drosophila melanogaster gene expression changes after spaceflight.

2011-08-31 | E-GEOD-23880 | biostudies-arrayexpress