A Semiautomated Framework for Integrating Expert Knowledge into Disease Marker Identification

Table 2

The list of the enriched general functional groups from the Ada-deficient model of COPD extracted by the expert knowledge-driven functional analysis using the BALF data. This list is based on (A) a GO-based biological process enrichment and (B) the disease-model-related expert selection.

No.	Enriched general functional group	(A) GO-based biological process	(B) The disease model-related GO cluster
1	Immune system process	(1) Immune system process	(13-1)^1 Immune system process
2	Stress/stimulus response	(2) Response to stimulus	(1) Response to stimulus; (2) Response to stress
3	Cellular response to stimulus	(3) Cellular process	(3) Cellular response to stimulus
4	Metabolic process	(4) Metabolic process	(4) Small molecule metabolic process; (5) Oxoacid metabolic process; (6) Oxidoreduction coenzyme metabolic process; (7) Nucleotide metabolic process; (8) Carbohydrate derivative metabolic process
5	Biological regulation	(5) Biological regulation	(9) Regulation of immune system process; (10) Regulation of localization; (11) Regulation of programmed cell death
6	Death	(6) Death	(12) Death
7	Localization	(7) Localization; (8) Establishment of localization	(13-2)^1 Localization; (13-3)^1 Establishment of localization
8	Cellular organization	(9) Cellular component organization or biogenesis	(13-4)^1 Cellular component organization or biogenesis
9	Proliferation	(10) Cell proliferation; (11) Growth; (12) Developmental process
10	Others	(13) Reproduction and reproductive process; (14) Biological adhesion; (15) Locomotion; (16) Multicellular organismal process; (17) Multiorganism process	(13-1)^1 Immune system process; (13-2)^1 Localization; (13-3)^1 Establishment of localization; (13-4)^1 Cellular component organization or biogenesis

1This term belongs to the 13th cluster (others) from the approach B.