Projects and publications that use PEER

PEER is used by a number of recent publications and analyses. Examples include:

• 1000 Genomes project

  A map of human genome variation from population-scale sequencing (Nature, Oct. 2010)

  PEER was applied to find additional eQTLs in the 1000 Genomes pilot cohort.

• MuTHER (Multiple Tissue Human Expression Resource)

  The Architecture of Gene Regulatory Variation across Multiple Human Tissues: The MuTHER Study (PLoS Genetics, Jan. 2011)

  PEER was applied to help account for global sources of variability that reduced the power to find eQTLs in some tissues.

• Plant genomics

  Multiple reference genomes and transcriptomes for Arabidopsis thaliana (Nature, September 2011)

• HapMap 3

  Patterns of cis regulatory variation in diverse human populations (PLoS Genetics, April 2012)

• Supervised PEER

  Joint Genetic Analysis of Gene Expression Data with Inferred Cellular Phenotypes. (PLoS Genetics, January 2011)

  This paper describes the model behind the supervised version of PEER, and applies it to data from Smith and Kruglyak (2008) to infer transcription factor and pathway activations.

• Original PEER

  A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. (PLoS Computational Biology, May 2010)

  This work describes the PEER model, compares it to alternatives, and applies it to genetics of gene expression data from yeast, mouse, and human.

Using PEER for your own work? We'd like to know about it, get in touch.