GIPS

GIPS (Gene Identification via Phenotype Sequencing) is software that facilitates gene cloning in forward genetics studies using sequencing data from multiple unrelated mutants sharing the same phenotype. The software integrates various experimental and analysis options within a probabilistic framework, eliminating the need to create segregated populations.

-GIPS provides four key measurements to optimize the analysis process:

-The probability of identifying the true phenotype-associated gene.
-The expected number of randomly reported genes.
-The significance of each candidate gene's association with the phenotype.
-The significance of violating Mendelian assumptions when no gene is reported, or all candidate genes fail validation.

Topic

Sequencing;Genetics;Genotype and phenotype;Sequence analysis

Detail

  • Operation: Genotyping

  • Software interface: Command-line interface

  • Language: Java

  • License: Not stated

  • Cost: Free of charge

  • Version name: 1.7

  • Credit: The National Basic Research Program of China, the Zhejiang Provincial Natural Science Foundation of China, the National Science Foundation of China, the Ministry of Agriculture of China, and the Ministry of Education Foreign Experts Bureau of China.

  • Input: -

  • Output: -

  • Contact: Weitao Wang wwtwin@zju.edu.cn ,Xin Chen xinchen@zju.edu.cn

  • Collection: -

  • Maturity: -

Publications

  • GIPS: A Software Guide to Sequencing-Based Direct Gene Cloning in Forward Genetics Studies.
  • Hu H, et al. GIPS: A Software Guide to Sequencing-Based Direct Gene Cloning in Forward Genetics Studies. GIPS: A Software Guide to Sequencing-Based Direct Gene Cloning in Forward Genetics Studies. 2016; 170:1929-34. doi: 10.1104/pp.15.01327
  • https://doi.org/10.1104/pp.15.01327
  • PMID: 26842621
  • PMC: PMC4825123

Download and documentation

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