E-MTAB-4694 - Drosophila Genetic Reference Panel (DGRP) F1 RNA-seq - a comparison to 3prime-tag-seq variance decomposition analysis

Status
Last updated on 9 January 2017, released on 10 January 2017
Organism
Drosophila melanogaster
Samples (12)
Protocols (4)
Description
Crosses were carried out between two pairs of lines from the Drosophila Genetic Reference Panel (DGRP): Line 765 (mother) x Line 517 (father) and Line 517 (mother) x Line 362 (father). Embryos resulting from these crosses (as well as from each of the parental lines) was collected at three stages of development: 2-4h, 6-8h, and 10-12h after egg laying. Following standard procedure, three, one-hour pre-lays were collected prior to the experiment (to synchronise embryo age) and all collections were done at 25C. Collections were also made of the reciprocal crosses at 2-4h after egg laying. To validate the variance decomposiiton analysis, we focused our attention on the primary F1 crosses 765 x 517 and 517 x 362. Estimates of line-specific expression, and associated methods, can be found as supplements to Cannavo et al.
Experiment types
RNA-seq of coding RNA, development or differentiation design, genotype design
Contact
Citation
Genetic variants regulating expression levels and isoform diversity during embryogenesis. Cannavò E, Koelling N, Harnett D, Garfield D, Casale FP, Ciglar L, Gustafson HE, Viales RR, Marco-Ferreres R, Degner JF, Zhao B, Stegle O, Birney E, Furlong EE.  (2016), Europe PMC 28024300
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-MTAB-4694.idf.txt
Sample and data relationshipE-MTAB-4694.sdrf.txt
Links