Analyzing the integration profile of retroviral vectors is a vital step in determining their potential genotoxic effects and developing safer vectors for therapeutic use. Identifying retroviral vector integration sites is also important for retroviral mutagenesis screens.Source…
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SeqMap
Web

SeqMap

A tool for identifying viral integration sites from LAM-PCR and LM-PCR…

A tool for identifying viral integration sites from LAM-PCR and LM-PCR analysis. SeqMap will extract vector sequence data then search existing genome databases for matches to the unique sequences…

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VISPA
Web

VISPA Vector Integration Site Parallel Analysis

A pipeline for automated integration site identification and annotation based…

A pipeline for automated integration site identification and annotation based on a distributed environment with a simple Galaxy web interface. VISPA was successfully used for the bioinformatics…

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VISA
Web

VISA Vector Integration Site Analysis

Analyzes next-generation sequencing data for retroviral vector integration…

Analyzes next-generation sequencing data for retroviral vector integration sites (RISs). Sequence reads that contain a provirus are mapped to the human genome, sequence reads that cannot be localized…

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hiReadsProcesso…
Desktop

hiReadsProcessor

Contains set of functions which allow users to process ligation-mediated…

Contains set of functions which allow users to process ligation-mediated polymerase chain reaction (LM-PCR) products sequenced using any platform. hiReadsProcessor gives an excel/txt file containing…

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HISAP
Web

HISAP High-Througput Insertion Site Analysis Pipeline

Annotates viral vector insertion site information for a collection of samples.…

Annotates viral vector insertion site information for a collection of samples. HISAP was generated to characterize insertions sites of viral gene therapy vectors, previously amplified with…

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VirusFinder
Desktop

VirusFinder

A software tool for characterizing intra-host viruses through next generation…

A software tool for characterizing intra-host viruses through next generation sequencing (NGS) data. It implements our recently developed algorithm, Virus intEgration site detection through Reference…

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QuickMap
Web

QuickMap

Uniformly maps and analyzes human and murine vector-flanking sequences within…

Uniformly maps and analyzes human and murine vector-flanking sequences within seconds. Besides information about hits in chromosomes and fragile sites, QuickMap automatically determines insertion…

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