Description
Display Conventions and Configuration
These ChIP-seq tracks are grouped into Multi-Wigs - one per mark per replicate. See table below for colours. The wiggle tracks have been independently normalised using the 99th quantile to generate scaling factors.
Colours used to denote each tissue type :-
- brain - Brain
- RPE - Retinal Pigmented Epithelium (eye)
- palate - Palate
- Tongue - Tongue
- ventricle - Ventricle (heart)
- Lung - Lung
- Thyroid - Thyroid (and parathyroid)
- Stomach - Stomach
- pancreas - Pancreas
- liver - Liver
- adrenal - Adrenal gland
- kidney - Kidney
- testes - Testes
- upperlimb - Upper limb
- lowerlimb - Lower limb
Methods
- Embryonic ChIP-seq mapped to hg38 using STAR.
- Uniquely mapped reads counted into 1kb bins using csaw
- Normalisation of read counts through downsampling using subseq with the 99th percentile as sample weight
Credits
We are very grateful to all women who consented to take part in our research programme and for the assistance of research nurses and clinical colleagues at Central Manchester University Hospitals NHS Foundation Trust. We thank Ian Donaldson, Peter Briggs and Andy Hayes of the Bioinformatics and Genomic Technologies Core Facilities at the University of Manchester for assistance with RNA-sequencing. REJ is a UK Medical Research Council (MRC) clinical research training fellow. NAH is a Wellcome Trust senior fellow in clinical science (WT088566MA). This project received support from the Wellcome Trust (WT097820) with additional support from MRC project grants MR/L009986/1 to NB and NAH, the British Council (14BX15NHBG) to NAH and MR/J003352/1 to KPH.
References
This data is unpublished. Please do not share without prior permission of neil.hanley@manchester.ac.uk