GSE185917
LRGASP challenge WTC11 ssCAGE sequencing derived peaks
The LRGASP challenge encompasses different human, mouse, and manatee samples sequenced using multiple combinations of protocols and platforms. Different challenges will use distinct subsets of the samples for evaluation. The long-read sequencing platforms used in these challenges are the Pacific Biosciences (PacBio) Sequel II, Oxford Nanopore (ONT) MinION and PromethION. Samples will also be sequenced on the Illumina HiSeq 2500. The primary LRGASP library prep protocols are “standard” cDNA sequencing, ?direct RNA sequencing?, ?R2C2?, and ?CapTrap?. Each sample will also include ?Lexogen SIRV-Set 4? spike-ins. We will also provide simulated PacBio and ONT data as part of the evaluations. This particular study focuses on single strand CAGE sequencing of human iPSCs, defining CAGE peaks from Illumina HiSeq 2500 (SR: 150 cycles) of two biological replicates for use in the LRGASP challenge. Overall design: ssCAGE peak calls of two biological replicates of iPSCs derived from adult skin (leg) fibroblasts