Despite extensive efforts by many groups, progress in the mapping of comple
x diseases has been exceedingly slow, only a few genes and some genetic reg
ions having been identified. The general picture is one of difficulty in lo
cating disease genes and in the replication of linkages. This results from
the role in disease of a large number of genes, many with a relatively mino
r effect and many involving common genetic variation. A multi-strategy appr
oach to the mapping of complex diseases is required: no single method is su
fficient or optimal. The role of human leukocyte antigens in type 1 diabete
s has been known for nearly 30 years, and the associations, linkage and gen
etic contribution to disease are all strong, but all the human leukocyte an
tigen region genes involved in the disease process have not yet been identi
fied. The methods used in study of this component to type 1 diabetes are a
model for all complex diseases.