Preparation of libraries for DNA sequencing for Illumina systems involves multiple steps. In a general workflow, purified DNA is fragmented, end-repaired, and A-tailed; adapters are ligated to the DNA fragments; libraries are ampl...
Steps to ensure accuracy in genotype and SNP calling from Illumina sequencing data. BMC Genomics. 2012;13(suppl 8):S8.Liu Q, Guo Y, Li J, Long J, Zhang B, Shyr Y. Steps to ensure accuracy in genotype and SNP calling from Illumina sequencing data . BMC Genomics 2012; 13 , Suppl. ...
expressing cells were infected with genome-wide gRNA lentiviral supernatant. Forty-eight hours post transduction, cells were selected with puromycin. Selected cells were harvested at days 6, 10 and 12 post infection, DNA was extracted and gRNAs libraries were generated for Illumina sequencing (HiSeq...
Quantified DNA libraries were pooled and then sequenced on the Illumina Hiseq System in 150 bp paired-end (PE) configuration. Sequencing data processing and analysis Sequencing data were preprocessed by Cutadapt (version 2.1)13 for removal of illumina sequencing adapters and low-quality bases. ...
The informatics resources adopted in this process currently include four major components as illustrated in Figure 1: a server at the sequencing laboratory (SeqLab); the researcher's workstation(s), for interactive analysis and remote access to the servers; a server for bioinformatics analysis (Bio...
The sequencing data in question was produced by the Ion Torrent platform, which means the Thermo Fisher team analyzed the data using tools custom-built to work with this type of sequence data. For example, during the variant calling process, t...
Throughout its nearly four-billion-year history, life has undergone evolutionary transitions in which simpler subunits have become integrated to form a more complex whole. Many of these transitions opened the door to innovations that resulted in increased biodiversity and/or organismal efficiency. The ...
MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina
One of the greatest challenges is the choice of the extraction and sequencing protocols, as well of the type of controls6. The extraction protocol should efficiently and specifically isolate microbial DNA/RNA, while removing the host DNA/RNA7. However, the variety of clinical samples used in ...
一般有两种办法,使用流式细胞来估计,或者使用Illumina short reads,也就是基于Kmer的方法,对基因组大小进行估计, 但由于流式细胞需要考虑到用什么物种(e.g. 所选用的参考物种基因组大小是多少,也就对应相应的DNA C-value)等,就需要进行先攻的查询,