oncogenetics / psav

PSA Velocity shiny application

PSAV v0.3

Calculate PSA Velocity

The application allows users to calculate PSA velocity using three methods from Methods of calculating prostate-specific antigen velocity. Connolly D, et.al.

1. Arithmetic equation of change in PSA over time (AE)
2. Linear regression (LR)
3. Rate of PSA change using first and last values only (FL)

Availability

The source code and installation instructions for PSAV are available at https://github.com/oncogenetics/PSAV.

PSAV is made available under the MIT license.

Required R Packages

install.packages(c("shiny","ggplot2","DT","dplyr","MASS","markdown"), dependencies = TRUE)  

Launch PSAV

1. Online: https://zx8754.shinyapps.io/PSA_Velocity/
2. Locally using R console: To start PSAV, open R (RStudio recommended), copy the following code into the console and hit Return:

library(shiny)  
runGitHub("PSAV", "oncogenetics")

Cite

The IMPACT study: Identification of Men with a genetic predisposition to ProstAte Cancer: Targeted screening in men at higher genetic risk and controls

Prostate-Specific Antigen Velocity as a Predictive Biomarker in a Prospective Prostate Cancer Screening Study of Men with Genetic Predisposition

Christos Mikropoulos¹⁺, Christina G. Selkirk³⁺, Sibel Saya¹ , Elizabeth Bancroft², Tokhir Dadaev¹, Charles Brendler³, Daniel A. Leongamornlert¹, Elizabeth Page¹, Natalie Taylor², Edward Saunders¹, Clara Cieza-Borrella¹, Alexander Dias¹, The IMPACT study collaborators, Sue Moss, Zsofia Kote-Jarai¹, Brian T. Helfand³⁺⁺, Rosalind A. Eeles^1,2++

1. The Institute of Cancer Research, 15 Cotswold Road, London, UK
2. The Royal Marsden NHS Foundation Trust, London, UK
3. Northshore University Health System, Evanston, Illinois, USA
   ⁺Joint first Authors, ⁺⁺Joint Senior Authors

Contact

Questions, suggestions, and bug reports are welcome and appreciated.

• Submit suggestions and bug-reports
• Contact email [T.Dadaev](mailto: [email protected])

To-do List

https://github.com/oncogenetics/PSAV/issues

This application was created by T.Dadaev and Prof.R.Eeles team.