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Figure 1 | BMC Bioinformatics

Figure 1

From: VISA - Vector Integration Site Analysis server: a web-based server to rapidly identify retroviral integration sites from next-generation sequencing

Figure 1

VISA requires minimal processing time relative to the alignment process. The processing steps are as follows: (1) Identify LTR-chromosome junctions and generate query sequences, (2) align query sequences to the genome using BLAT, (3) retrieve the top 5 alignments for each query sequence and filter out alignments that cannot be aligned to a unique location in the genome, (4) identify the unique RISs, (5) determine proximity of unique RISs to nearby genes, and (6) prepare the excel and CSV output files. Sequence reads containing lentiviral LTR-chromosome junctions were processed with VISA. 3 input files were used with a mean of 502,083 sequence reads per file. Standard error bars are shown. * indicates the value is less than 1 %

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BMC Bioinformatics

ISSN: 1471-2105

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