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Series GSE121855 Query DataSets for GSE121855
Status Public on Oct 27, 2018
Title Application of Chromatrap® Solid-State Chromatin Immunoprecipitation (ChIP) for epigenetic profiling of insects
Organisms Drosophila melanogaster; Nicrophorus vespilloides
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We report the application of Chromatraps® Solid-State Chromatin Immunoprecipitation technology for epigenetic profiling of histone modifications in insects. Here, we present the optimised protocol and conditions of Chromatrap® kits for successful ChIP and high-throughput sequencing of established model species, Drosophila melanogaster and the emerging model for behavioural plasticity Nicrophorus vespilloides. We highlight successful ChIP-seq of Drosophila melanogaster (Oregon-R) of comparable quality to modENCODE data and present successful enrichment of histone marks for Nicrophorus vespilloides. The addition of this insect-based ChIP-seq protocol provides a set of optimal guidelines to aid streamline end-users epigenetic research focus and reduce experimental time.
Overall design Optimization of ChIP-seq protocol for insect tissue of two species; Drosophila melanogaster (strain: Oregon-R) and Nicrophorus vespilloides at two different life stages; 3rd instar larvae and adult whole brains respectively. Four replicates per insect investigated using one antibody; H3K4me3 including input controls for each ChIP assay.
Contributor(s) Generalovic TN, Cunningham CB, Johnson A
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Submission date Oct 26, 2018
Last update date Feb 20, 2019
Contact name Tomas Nicholas Generalovic
Organization name Swansea University
Department Bioscience
Lab Cunningham Lab
Street address Swansea University, Singleton Campus
City Swansea
State/province West Glamorgan
ZIP/Postal code SA2 8PP
Country United Kingdom
Platforms (2)
GPL16479 Illumina MiSeq (Drosophila melanogaster)
GPL25731 Illumina MiSeq (Nicrophorus vespilloides)
Samples (16)
GSM3447788 Dm_H3K4me3_ChIP_S1
GSM3447789 Dm_Input_S1
GSM3447790 Dm_H3K4me3_ChIP_S2
BioProject PRJNA498662
SRA SRP166955

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Supplementary file Size Download File type/resource
GSE121855_RAW.tar 280.0 Kb (http)(custom) TAR (of BED)
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Raw data are available in SRA
Processed data provided as supplementary file

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