Experiment summary for ENCSR816TQX
doi:10.17989/ENCSR816TQX
Summary
- Status
- released
- Assay
- ChIP-seq (TF ChIP-seq)
- Target
- Vsx2
- Biosample summary
- Drosophila melanogaster strain Vsx2-GFP whole organism wandering third instar larva genetically modified (insertion) using site-specific recombination targeting D. melanogaster Vsx2
- Biosample Type
- whole organisms
- Replication type
- isogenic
- Description
- ChIP-seq on transgenic flies expressing Vsx2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
- Nucleic acid type
- DNA
- Size range
- 225-300 [2-1]200-300 [1-1]
- Fragmentation methods
- sonication (Bioruptor generic)
- Size selection method
- E-Gel
- Platform
- Illumina HiSeq 2500
- Controls
Attribution
modERN project
- Lab
- Kevin White, UChicago
- Award
- U41HG007355 (Robert Waterston, UW)
- Project
- modERN
- External resources
- Aliases
- kevin-white:Vsx2-GFP
- Date submitted
- July 23, 2015
- 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 Furthermore, several unpublished concordant ChIP-seq datasets have been previously generated with Ab290 and either TF specific antibodies or other ENCODE-validated anti-GFP antibodies.
- Factorbook
Encyclopedia Integration
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Antibody | Library |
|---|---|---|---|---|---|---|
| 2 | 1 | Drosophila melanogaster strain Vsx2-GFP mixed sex wandering third instar larva whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster Vsx2 | ENCBS580PQF | ENCGM206DYJ | ENCAB426GGE | ENCLB193ECM |
| 1 | 1 | Drosophila melanogaster strain Vsx2-GFP mixed sex wandering third instar larva whole organism genetically modified (insertion) using site-specific recombination targeting D. melanogaster Vsx2 | ENCBS973KXO | ENCGM206DYJ | ENCAB426GGE | ENCLB153ZMR |