Bo Peng wrote:
In my case, PLoS genetics only accept MS Word submission and the Scientific Publication department of our institution only accepts manuscripts in Word format for proofread (so that they can use the change tracking feature of word, although this feature is also available in lyx).
Is your institution public? If that is the case you may argue a public institution cannot force you to use a proprietary format. Our taxes cannot be used to enrich Bill Gates, can they?
Nicolás