Youngjo Lee & John A. Nelder 
Generalized Linear Models with Random Effects [PDF ebook] 
Unified Analysis via H-likelihood, Second Edition

This is the second edition of a monograph on generalized linear models with random effects that extends the classic work of Mc Cullagh and Nelder. It has been thoroughly updated, with around 80 pages added, including new material on the extended likelihood approach that strengthens the theoretical basis of the methodology, new developments in variable selection and multiple testing, and new examples and applications. It includes an R package for all the methods and examples that supplement the book.