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| Status |
Public on Jun 26, 2015 |
| Title |
damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets |
| Organism |
Drosophila melanogaster |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
DamID is a powerful technique for identifying regions of the genome bound by a DNA-binding (or DNA-associated) protein. Currently no method exists for automatically processing next-generation sequencing DamID (DamID-seq) data, and the use of DamID-seq datasets with normalisation based on read-counts alone can lead to high background and the loss of bound signal. DamID-seq thus presents novel challenges in terms of normalisation and background minimisation. We describe here damidseq_pipeline, a software pipeline that performs automatic normalisation and background reduction on multiple DamID-seq FASTQ or BAM datasets.
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| Overall design |
Single replicate profiling of pol II occupancy in 3rd instar larval neuroblasts of Drosophila
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| Contributor(s) |
Marshall OJ, Brand AH |
| Citation(s) |
26112292 |
| |
| Submission date |
May 22, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Owen Marshall |
| E-mail(s) |
owen.marshall@utas.edu.au
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| Organization name |
Menzies Institute for Medical Research
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| Street address |
17 Liverpool St
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| City |
Hobart |
| State/province |
Tas |
| ZIP/Postal code |
7000 |
| Country |
Australia |
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| Platforms (1) |
| GPL17275 |
Illumina HiSeq 2500 (Drosophila melanogaster) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA284767 |
| SRA |
SRP058651 |
