Article Title: Comparison of variations detection between whole-genome amplification methods used in single-cell resequencing
Figure Lengend Snippet: A narrowing-down strategy used to compare WGA methods cost-effectively. We describe the narrowing-down strategy using 3 panels ( a , b , c ). We perform LWGS comparison including genome coverage and uniform using YH single cells which are amplified by seven WGA kits based on DOP, MDA and MALBAC methods in panel A. We additionally compare the CNVs detection using simulated data of YH single cells in panel A. In panel B, we perform the deep WGS comparison of biases and SNVs detection using deep-sequenced YH or SW480 single cells amplified by DOP, MDA or MALBAC respectively. Corresponding bulk data is used as unamplified control. In panel C, we further compare the CNVs detection between MDA-2 and MALBAC amplified data using real data of BGC823 single cells. *Ion Proton sequencing data; #Illumina and Ion Proton sequencing data. LWGS, low-coverage whole-genome sequencing; WGS: whole genome sequencing. DOP-1,GenomePlex® Single Cell WGA Kit; DOP-2, Silicon Biosystem Ampli ™ WGA Kit; DOP-3, NEB Single Cell WGA Kit; MDA-1, Qiagen REPLI-g Mini Kit; MDA-2, Qiagen REPLI-g Single Cell Kit; MDA-3, GE Healthcare illustra GenomiPhi V2 DNA Amplification Kit; MALBAC,Yikon Genomics Single Cell Whole Genome Amplification Kit. Data marked in purple is downloaded
Article Snippet: The kits used were Qiagen REPLI-g Mini Kit (MDA-1), Qiagen REPLI-g Single Cell Kit (MDA-2), GE Healthcare illustra GenomiPhi V2 DNA Amplification Kit (MDA-3), GenomePlex® Single Cell WGA Kit (DOP-1), Silicon Biosystem Ampli1™ WGA Kit (DOP-2), NEB Single Cell WGA Kit (DOP-3), and Yikon Genomics Single Cell WGA Kit (MALBAC).
Techniques: Whole Genome Amplification, Amplification, Multiple Displacement Amplification, Multiple Annealing and Looping–Based Amplification Cycles, Sequencing