Experiment summary for ENCSR492KRE

Summary

Status
released
Assay
ChIP-seq (TF ChIP-seq)
Target
insv
Biosample summary
Drosophila melanogaster VK00033 whole organism embryo (0-24 hours) genetically modified using site-specific recombination
Biosample Type
whole organisms
Replication type
isogenic
Description
ChIP-seq on transgenic flies expressing insv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
Nucleic acid type
DNA
Size range
200-800
Fragmentation methods
sonication (Bioruptor generic)
Size selection method
SPRI beads
Strand specificity
Non-strand-specific
Controls

Attribution

modERN project
Lab
Kevin White, UChicago
Award
U41HG007355 (Robert Waterston, UW)
Project
modERN
Aliases
kevin-white:insv-GFP-2
Date submitted
September 11, 2017
Date released
July 6, 2018
Submitter comment
The modERN consortia has concluded that the anti-GFP antibody Ab290 (Abcam) is suitable for ChIP-seq in C. elegans and D. melanogaster. ENCODE has not accepted immunofluorescence as a valid assay for antibody specificity. However, we have found that immunofluorescence on GFP tagged lines using Ab290 can recapitulate expression patterns generated by RNA in situ hybridization. Furthermore, several unpublished concordant ChIP-seq datasets have been previously generated with Ab290 and either TF specific antibodies or other ENCODE-validated anti-GFP antibodies.

Isogenic replicates

Isogenic replicate
Technical replicate
Summary
Biosample
Modifications
Antibody
Library
21strain insv-GFP mixed sex embryo (0-24 hours) whole organism genetically modified (insertion) using site-specific recombination targeting insvENCBS365SXKENCGM238IIXENCAB728YTOENCLB104WWD
11strain insv-GFP mixed sex embryo (0-24 hours) whole organism genetically modified (insertion) using site-specific recombination targeting insvENCBS476NTLENCGM238IIXENCAB728YTOENCLB000NUE
31strain insv-GFP mixed sex embryo (0-24 hours) whole organism genetically modified (insertion) using site-specific recombination targeting insvENCBS224OXTENCGM238IIXENCAB728YTOENCLB187TWO