Genetic and Genomics assays

Gexarray=Expression array

Transcription profiling by array is used to measure the activity of genes in the HipSci cell lines. HipSci assays the transcriptome expression profile in all iPS cell lines and in the equivalent somatic cells. HipSci’s QC procedure uses transcript expression to ensure that derived cell lines have a profile typical of the pluripotent state.

Gtarray= Genotyping array

HipSci assays for genotypes in all iPS cell lines and in the equivalent somatic cells. HipSci’s QC procedure compares the called genotypes between the primary and derived cells of the same donor, to ensure genomic integrity in the derived lines.

Exomeseq= Exome sequencing

Exome sequencing is performed on all HipSci iPS cell lines selected for banking after passing QC. We have also generated exome sequencing data for ~250 healthy normal parent fibroblasts. Sequencing and primary analysis are performed at the Wellcome Trust Sanger Institute.

Rnaseq=RNA sequencing

RNA-sequencing is performed on all HipSci iPS cell lines selected for banking after passing QC. Sequencing and primary analysis are performed at the Wellcome Trust Sanger Institute.

Mtarray=Methylation array

Methylation profiling by array is used to probe the epigenetic state of HipSci iPS cell lines. HipSci assays iPS cell lines that are selected for banking after passing QC. This assay and primary analysis is performed at the Wellcome Trust Sanger Institute.

Wgs=Whole genome sequencing

A small selection (~150 donors) of iPS cell lines and their primary somatic cells have been deep whole genome sequenced at 30x coverage.