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TranscriptomicsComparison of systematic sequencing errors using spike-in standards
While the importance of random sequencing errors decreases at higher DNA or RNA sequencing depths, systematic sequencing errors (SSEs) dominate at high sequencing depths and can be difficult to distinguish from biological variants. These SSEs can cause base quality scores to underestimate the proba...
ORGANISM(S): Homo sapiens 
2012-03-03 | E-GEOD-36217 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of rat liver and kidney mixtures on an Affymetrix platform to assess technical and biological variability
In this experiment, there are replicate measurements of gene expression in a group of similarly treated animals measured in such a way as to provide data for comparison of technical variation with biological variability. The data are twelve microarray measurements on each of six rats that were subj...
ORGANISM(S): Rattus norvegicus 
2008-08-12 | E-TABM-536 | biostudies-arrayexpress
GenomicsDNA-Seq of DrosDel deficiency lines and w1118 lines
DNASeq reads from pools of female or male DrosDel and w1118 (parental strain for the Df/+ flies). Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_DNASeq_biological replicate #. We sequenced DNA from pools of female or male DrosDel and ...
ORGANISM(S): Drosophila melanogaster 
2012-04-03 | E-GEOD-31550 | biostudies-arrayexpress
TranscriptomicsRNA-Seq on Illumina platform of Drosophila DrosDel deficiency lines
RNA-Seq reads of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the Illumina platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #_platform. We seque...
ORGANISM(S): Drosophila melanogaster 
2012-04-03 | E-GEOD-31549 | biostudies-arrayexpress
TranscriptomicsRNA-Seq on SOLiD platform of DrosDel deficiency and w1118 flies
RNA-Seq reads of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the SOLiD platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #_platform_technical re...
ORGANISM(S): Drosophila melanogaster 
2012-04-03 | E-GEOD-31401 | biostudies-arrayexpress
TranscriptomicsDrosophila DrosDel deficiency and diploid control flies
GSE31386: Microarray expression analysis of Drosophila DrosDel deficiency lines GSE31401:RNA-Seq on SOLiD platform of DrosDel deficiency and w1118 flies GSE31549: RNA-Seq on Illumnia platform of DrosDel deficiency and w1118 lines GSE31550: DNA-Seq of Drosophila DrosDel deficiency and w1118 lines Ref...
ORGANISM(S): Drosophila melanogaster 
2012-04-02 | E-GEOD-31407 | biostudies-arrayexpress
TranscriptomicsMicroarray expression analysis of Drosophila DrosDel deficiency lines
Microarray data of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the Nimblegen 12-plex array platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #. ...
ORGANISM(S): Drosophila melanogaster 
2012-04-02 | E-GEOD-31386 | biostudies-arrayexpress
TranscriptomicsmRNA sequence data of individual Drosophila melanogaster male and female flies from 16 Drosophila Genetic Reference Panel lines reared in replicated environments
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...
ORGANISM(S): Drosophila melanogaster 
2015-12-21 | E-GEOD-60314 | biostudies-arrayexpress
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