INSPIIRED

INSPIRED (integration site pipeline for paired-end reads) is an R tool for studying and tracking viral sequence integration sites in cellular genomes to characterize populations of transduced cells in human gene therapy.

Topic

Genomics;Epigenetics;DNA replication and recombination

Detail

  • Operation: Genetic variation analysis

  • Software interface: Suite

  • Language: R

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: -

  • Credit: NIH, the European Research Council (ERC Regenerative Therapy 269037), the French National Agency for Research on AIDS and Viral Hepatitis, the Penn Center for AIDS Research, the PennCHOP Microbiome Program.

  • Input: -

  • Output: -

  • Contact: Frederic D Bushman bushman@mail.med.upenn.edu

  • Collection: -

  • Maturity: -

Publications

  • INSPIIRED: A Pipeline for Quantitative Analysis of Sites of New DNA Integration in Cellular Genomes.
  • Sherman E, Nobles C, Berry CC, et. al. INSPIIRED: A Pipeline for Quantitative Analysis of Sites of New DNA Integration in Cellular Genomes. Mol Ther Methods Clin Dev. 2016 Dec 18;4:39-49. doi: 10.1016/j.omtm.2016.11.002. PMID: 28344990; PMCID: PMC5363316.
  • https://doi.org/10.1016/j.omtm.2016.11.002
  • PMID: 28344990
  • PMC: PMC5363316
  • INSPIIRED: Quantification and Visualization Tools for Analyzing Integration Site Distributions.
  • Berry CC, Nobles C, Six E, Wu Y, Malani N, Sherman E, Dryga A, Everett JK, Male F, Bailey A, Bittinger K, Drake MJ, Caccavelli L, Bates P, Hacein-Bey-Abina S, Cavazzana M, Bushman FD. INSPIIRED: Quantification and Visualization Tools for Analyzing Integration Site Distributions. Mol Ther Methods Clin Dev. 2016 Dec 18;4:17-26. doi: 10.1016/j.omtm.2016.11.003. PMID: 28344988; PMCID: PMC5363318.
  • https://doi.org/10.1016/j.omtm.2016.11.003
  • PMID: 28344988
  • PMC: PMC5363318

Download and documentation

< Back to DB search