This is the MEG bible, with lots of information on all aspects of MEG measurements and analysis:
Magnetoencephalography: theory, instrumentation, and applications to noninvasive studies of the working human brain Matti Hämäläinen, Riitta Hari, Risto J. Ilmoniemi, Jukka Knuutila, and Olli V. Lounasmaa Rev. Mod. Phys. 1993, vol 65, 413:497
Look here for a slightly shorter Introduction to MEG by Cohen&Halgren.
For MNE-related papers, look at the corresponding MNE publication list.
Look here for an Introduction to EEG/MEG analysis.
Look here for Recent CBU EEG/MEG Publications.
You can find the books MEG: An Introduction to Methods, An Introduction to the Event-Related Potential Technique and Event-Related Potentials in the CBU library.