Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Drosophila melanogaster

ABSTRACT: damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

PROVIDER: PRJNA284767 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR2038537.fastq.gz	Fastqsanger.gz
	SRR2038538.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

Project description: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. Single replicate profiling of pol II occupancy in 3rd instar larval neuroblasts of Drosophila

2015-06-26 | E-GEOD-69184 | biostudies-arrayexpress

Tissue-specific DamID profiling of chromatin proteins in Drosophila melanogaster

Project description:Analysis of gene expression regulation typically requires identification of genomic sites where regulatory proteins bind. For this purpose, ChIP and DamID methods applied to cell lines or model organisms are now routinely used, even in selected cell types. In this work, we present modifications to experimental DamID protocol, as well as a custom data processing algorithm that allows to confidently identify genomic sites enriched with the proteins of interest. This algorithm is implemented in Perl and is also available as executable files thereby making DamID analysis relatively straightforward. Finally, we demonstrate how this pipeline performs when fed with real experimental data.

2016-08-30 | GSE86205 | GEO

damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

2015-06-26 | GSE69184 | GEO

Drosophila melanogaster

Project description:DamID for Lola-O

| PRJNA382990 | ENA

Drosophila melanogaster

Project description:Inducible DamID systems for genomic mapping of chromatin proteins in Drosophila [DamID-seq]

| PRJNA305509 | ENA

Drosophila melanogaster

Project description:Targeted DamID for Lola-O

| PRJNA404078 | ENA

Sequencing of methylated GATC DNA fragments (Targeted DamID) from seven olfactory neuron populations in Drosophila melanogaster

Project description:This project’s aim was to compare the transcriptional profiles of olfactory sensory neurons in Drosophila melanogaster in order to identify novel genes that specify neuron-specific functions/phenotypes or may otherwise be involved in the development of the olfactory system. The isolation of sufficient numbers of intact olfactory sensory neurons (OSN) from the antenna of Drosophila melanogaster has so far limited single-cell transcriptomic approaches being applied to the adult fly antenna. Targeted DamID (TaDa) provides an alternative approach for profiling transcriptional activity in a cell-specific manor that bypasses the need for isolating OSN. Using the Gal4/UAS system, we applied TaDa to seven OSN populations and compared differences in Pol II occupancy for genes across these datasets.

2021-03-17 | E-MTAB-8935 | biostudies-arrayexpress

Drosophila melanogaster

Project description:Identifying targets of DSX with DamID-seq

| PRJNA137151 | ENA

Drosophila melanogaster

Project description:Identifying targets of DSX with DamID-chip

| PRJNA214014 | ENA

Drosophila melanogaster

Project description:Wash regulates lamin-dependent nuclear genome organization [DamID]

| PRJNA256473 | ENA