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damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

journal contribution
posted on 2023-05-18, 19:26 authored by Owen MarshallOwen Marshall, Brand, AH
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 normalization 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 normalization and background minimization. We describe here damidseq_pipeline, a software pipeline that performs automatic normalization and background reduction on multiple DamID-seq FASTQ datasets.

History

Publication title

Bioinformatics

Volume

31

Issue

20

Pagination

3371-3373

ISSN

1367-4803

Department/School

Menzies Institute for Medical Research

Publisher

Oxford Univ Press

Place of publication

Great Clarendon St, Oxford, England, Ox2 6Dp

Repository Status

  • Restricted

Socio-economic Objectives

Expanding knowledge in the health sciences

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