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Transcriptional Profiling of Compound-based treatments of D. melanogaster using Illumina poly(A)+ RNA-Seq

experiment: Transcriptional Profiling of Compound-based treatments of D. melanogaster using Illumina poly(A)+ RNA-Seq project: The Drosophila Transcriptome PI: Sue Celniker Labs: Brenton Graveley
RNA-seq analysis was performed on poly(A)+ RNA from D. melanogaster treated with various chemicals through feeding, subjected to temperature shock, or exposure to viruses. Total RNA was isolated by the Peter Cherbas group. Isolation of poly(A)+ RNA and strand-specific library construction were performed in the Brenton Graveley lab. Libraries were distributed among 3 labs in the Drosophila Transcriptome group for sequencing (Celniker, Gingeras, and Graveley) for paired-end RNA sequencing (2x76+ nt) on the GAIIx and HiSeq platforms. Fastq files were generated using pipeline version 1.5.
There are 21 RNA-seq submissions for this experiment:
DCC id Name developmental stage compound strain Embargoed until Features, GBrowse and Data Files
modENCODE_4276


Related to: modENCODE_3724
modENCODE_4359
modENCODE_4677

Dm Treatment Expression RNA-seq Cd Treatment 0.05M Cdcl2 Four Day Adults sequencing Adult mixed-sex flies [ALL]
cadmium dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103725
SRA: SRR124260
Download data files
modENCODE_4289


Related to: modENCODE_3724
modENCODE_4690
modENCODE_4372

Dm Treatment Expression RNA-seq Zn Treatment 4.5mM Zinc Four Day Adults sequencing Adult mixed-sex flies [ALL]
zinc dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103742
SRA: SRR103743
Download data files
modENCODE_4277


Related to: modENCODE_3724
modENCODE_4360
modENCODE_4678

Dm Treatment Expression RNA-seq Cd Treatment 0.05mM CdCl2 Late Third Instar Larvae 12hr sequencing L3 stage wandering larvae [ALL]
cadmium dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103736
SRA: SRR103737
Download data files
modENCODE_4290


Related to: modENCODE_3724
modENCODE_4691
modENCODE_4373

Dm Treatment Expression RNA-seq Zn Treatment 5mM Zinc Late Third Instar Larvae sequencing L3 stage wandering larvae [ALL]
zinc dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103714
SRA: SRR103715
Download data files
modENCODE_4274


Related to: modENCODE_3724
modENCODE_4357
modENCODE_4675

Dm Treatment Expression RNA-seq Caffeine Treatment 2.5 mg ml Four Day Adults sequencing Adult mixed-sex flies [ALL]
caffeine [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103746
SRA: SRR124258
Download data files
modENCODE_4284


Related to: modENCODE_3725
modENCODE_4367
modENCODE_4685

Dm Treatment Expression RNA-seq Heat shock 1hr@36C wet heat 30min@25C Four Day Adults sequences adult [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103723
SRA: SRR103724
Download data files
modENCODE_4287


Related to: modENCODE_3724
modENCODE_4688
modENCODE_4370

Dm Treatment Expression RNA-seq Rotenone Treatment 2ug ml Third Instar Larvae sequencing L3 stage wandering larvae [ALL]
rotenone [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103719
SRA: SRR103720
Download data files
modENCODE_4288


Related to: modENCODE_3724
modENCODE_4689
modENCODE_4371

Dm Treatment Expression RNA-seq Rotenone Treatment 8ug ml Third Instar Larvae sequencing L3 stage wandering larvae [ALL]
rotenone [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103734
SRA: SRR103735
Download data files
modENCODE_4286


Related to: modENCODE_3724
modENCODE_4687
modENCODE_4369

Dm Treatment Expression RNA-seq Paraquat Treatment 5mM Four Day Adults sequencing Adult mixed-sex flies [ALL]
paraquat [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103718
SRA: SRR124259
Download data files
modENCODE_4280


Related to: modENCODE_3725
modENCODE_4363
modENCODE_4681

Dm Treatment Expression RNA-seq Cold treatment Method 1 Four Day Adults sequences adult [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103708
SRA: SRR103709
Download data files
modENCODE_4281


Related to: modENCODE_3725
modENCODE_4364
modENCODE_4682

Dm Treatment Expression RNA-seq Cold Treatment Method 2 Four Day Adults sequences adult [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103710
SRA: SRR103711
Download data files
modENCODE_4279


Related to: modENCODE_3724
modENCODE_4362
modENCODE_4680

Dm Treatment Expression RNA-seq Cd Treatment 0.1M Cdcl2 Four Day Adults sequencing Adult mixed-sex flies [ALL]
cadmium dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103744
SRA: SRR103745
Download data files
modENCODE_4278


Related to: modENCODE_3724
modENCODE_4361
modENCODE_4679

Dm Treatment Expression RNA-seq Cd Treatment 0.05mM CdCl2 Late Third Instar Larvae 6hr sequencing L3 stage wandering larvae [ALL]
cadmium dichloride [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103716
SRA: SRR103717
SRA: SRR103738
SRA: SRR103739
Download data files
modENCODE_4283


Related to: modENCODE_3724
modENCODE_4366
modENCODE_4684

Dm Treatment Expression RNA-seq Cu Treatment 15mM Copper Four Day Adults sequencing Adult mixed-sex flies [ALL]
copper(2+) sulfate [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103740
SRA: SRR103741
Download data files
modENCODE_4270


Related to: modENCODE_3724
modENCODE_4353
modENCODE_4671

Dm Treatment Expression RNA-seq 10% EtOH Third Instar larvae sequencing L3 stage wandering larvae [ALL]
ethanol [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103726
SRA: SRR103727
Download data files
modENCODE_4273


Related to: modENCODE_3724
modENCODE_4356
modENCODE_4674

Dm Treatment Expression RNA-seq Caffeine Treatment 1.5 mg ml Third instar larvae sequencing L3 stage wandering larvae [ALL]
caffeine [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103732
SRA: SRR103733
Download data files
modENCODE_4272


Related to: modENCODE_3724
modENCODE_4355
modENCODE_4673

Dm Treatment Expression RNA-seq 5% EtOH Third Instar larvae sequencing L3 stage wandering larvae [ALL]
ethanol [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103728
SRA: SRR103729
Download data files
modENCODE_4275


Related to: modENCODE_3724
modENCODE_4358
modENCODE_4676

Dm Treatment Expression RNA-seq Caffeine Treatment Pre Lethal Four Day Adults sequencing Adult mixed-sex flies [ALL]
caffeine [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103747
SRA: SRR103748
Download data files
modENCODE_4282


Related to: modENCODE_3724
modENCODE_4365
modENCODE_4683

Dm Treatment Expression RNA-seq Cu Treatment 0.5mM Copper Third Instar Larvae sequencing L3 stage wandering larvae [ALL]
copper(2+) sulfate [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103712
SRA: SRR103713
Download data files
modENCODE_4285


Related to: modENCODE_3724
modENCODE_4368
modENCODE_4686

Dm Treatment Expression RNA-seq Paraquat Treatment 10mM Four Day Adults sequencing Adult mixed-sex flies [ALL]
paraquat [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103721
SRA: SRR103722
Download data files
modENCODE_4271


Related to: modENCODE_3724
modENCODE_4354
modENCODE_4672

Dm Treatment Expression RNA-seq 2.5% EtOH Third Instar larvae sequencing L3 stage wandering larvae [ALL]
ethanol [ALL]
Oregon-R-modENCODE [ALL]
embargo expired SRA: SRR103730
SRA: SRR103731
Download data files