TIQAM (Targeted Identification for Quantitative Analysis by MRM)
IntroductionTIQAM is developed as a suite of software tools to support targeted indentification and quantification using multiple reaction monitoring (MRM) mass spectum technology. More specifically, TIQAM software provided user friendly interfaces to assist process of peptide selection, transition generation and validation. The overview of the software supporting work flow is illustrated by the following figure.
The detailed information on the work flow and the application using TIQAM software for targeted quantitative analysis of Streptococcus pyogenes virulenece factors has been written and submitted to a scientific journal for review. The article title and authors are "Targeted Quantitative Analaysis of Streptococcus Pyogenes Virulenece Factors by Multiple Reaction Monitoring" by
Lange, Johan A. Malmström,
Third party software requirementCurrent TIQAM software supports Window, Mac and Linux OS and requires Java 1.6 java run time environment and MySQL community edition 5.0 database installed prior to running TIQAM software.
Create Databases for TIQAM softwarePlease download sql scripts (createtrans.sql, createmrm.sql) carefully type the following statments exactly as written
>C:\where you installed mysql\bin\mysql -u root -p < createtrans.sql
>C:\where you installed mysql\bin\mysql -u root -p < createmrm.sql
Download and installing mzWiff for wiff file converter to mzXMLTIQAM software uses mzXML as an input standard. The mzWiff is a wiff file converter to mzXML.
mzWiff program can be downloaded from mzWiff beta version website.
Current release version of TIQAM software suiteTIQAM-Digestor 1.2.3
Download and installing TIQAM software suite
TIQAM for Win32_x86Copyright (c) 2007 Mi-Youn Brusniak and Aebersold group
TIQAM for Linux_gtk_x86
Unzip the download folder and you can find TIQAM-digester, TIQAM-peptide-atlas and TIQAM-viewer with version number suffix folders. In each folder subdirectory, you will find .exe files to launch each TIQAM modules.
Download Tutorial Documentations and Demo Data SetTutorial documents for each module is in TIQAM-Tutorial.zip
The corresponding demo data set is in TIQAM-TutorialDemoData.zip
Download Data Set related to the above reference paper published in Molecular & Cellular Proteomics 2008DataSet for TIQAM
Download TIQAM source codeTIQAM-src.tgz
More information is available in the following wiki site.TIQAM Wiki at Seattle Proteomics Center
If you have any question on software installation, please contact using the following contact information.
Mi-Youn Brusniak, Ph.D.
1441 North 34th St.
Seattle, WA 98103 USA