Meta-analysis for multi-tissue eQTL studies

Meta-Tissue is a free software for identifying eQTLs from multiple tissues. It uses meta-analysis to combine results from multiple tissues. As the above picture shows, studies may not detect eQTLs in any of 4 tissues (cortex, heart, liver, spleen). However, by combining results of 4 tissues, we may detect eQTLs. Hence, Meta-Tissue is a powerful approach to detect eQTLs shared across multiple tissues. More information on our methodology and results on simulation and mouse dataset can be found in the following manuscript:

Jae Hoon Sul*, Buhm Han*, Chun Ye*, Ted Choi, and Eleazar Eskin, "Effectively identifying eQTLs from multiple tissues by combining mixed model and meta-analytic approaches." PLoS Genetics. 9, e1003491, 2013. Link


    May 9, 2019: MetaTissueMM compiled with Intel compiler version 18.0.3 is released. Please try this version if you encounter segmentation fault or tissue-by-tissue results give very different results from linear regression in R.

    September 8, 2017: New version 0.5 is posted. It has a new option to display all statistics of Metasoft.

    June 22, 2017: A version of MetaTissueMM that avoids a segmentation fault is uploaded. Please read the FAQ section.

    September 18, 2014: New version 0.4 is posted! This version includes support for covariates and dosage. Please let me know if you find any problems with new options.

    August 15, 2013: Updated FAQ and download. Posted JAR files compiled with Java 1.6.

    July 31, 2013: New version 0.3 is posted! Please note that all options are changed to long option starting this version. It has many new options such as more powerful meta-analysis and cis-region analysis.

    June 11, 2013: New MetaTissue software with more powerful meta-analysis method will be available soon. Please check the website in two weeks!

    March 27, 2013: Our paper is accepted into PLoS Genetics! Version 0.2 is also posted

    February 9, 2013: Homepage is up! More stuff will come soon

    Contact: Jae Hoon Sul (jhsul at research dot bwh dot harvard dot edu)