There is quite a lot of research on self-awakening (see this search on Google Scholar for self awakening). Hopefully someone else more familiar with this literature can add a more authoritative answer about the mechanisms of self-awakening. In the interem I briefly extract some relevant points from Ikeda and Hashi (2012). The study does not directly address biological mechanisms. However, understanding the reliability of self-awakening and the correlates of the ability to self-awaken is presumably relevant to forming such an understanding.
First they summarise some existing research:
Both the accuracy and success rate of self-awakening have been
experimentally examined. More than half of the people who have the
ability to self-awaken suc- cessfully awakened within 30 minutes of
the predetermined time. For example, seven participants succeeded on
nine of 14 days (64%) in a sleep laboratory, and 15 participants
succeeded on 35 of 44 nights (80%) at their homes. Survey studies
indicate that many people habitually self-awaken in daily life; for
example, 52% of 269 adults (aged 21−84 years) and 10.3% of 643
university students6 reported habitu- ally self-awakening. People who
have a habit of self-awakening in the morning have regular sleep/wake
schedules, tended to have a morningness chronotypology, awakened
comfortably in the morning, and had less daytime dozing.
In their own study they found:
The present study investigated self-awakening, both habitual and
inconsistent, compared to awakening by external means in relation to
sleep/wake schedules for five consecutive years in 362 students
(starting at mean age 15.1 ± 0.3 years). Students who self-awakened
consistently for five consecutive years (5% of all students) went to
bed earlier than those who inconsistently self-awakened (mixed group,
40%) or consistently used forced awakening by external means (56%).
Awakening during sleep was more frequent and sleep was lighter in the
consistently self-awakened group than in the mixed and consistently
forced-awakened groups. However, daytime dozing was less frequent and
comfort immediately after awakening was greater for the consistently
self-awakened group than for the mixed and consistently
- Ikeda, H., & Hayashi, M. (2012). Longitudinal study of self-awakening and sleep/wake habits in adolescents. Nature, 4, 103-109. PDF
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