Table 2. Dauer recovery
A. Functional classes
			Representation factor (number overlap)b
	Total on	Dauer-
Gene Classa	Array	enriched	Transient	Early	Climbing	Late
Genome	17761	540	195	538	386	325
Glycolysis	21				6.5 (3)
TCA	30				9.1 (6)
Muscle Expressed Genes	1329				2.6 (76)
Hedgehog-like	46					12 (10)
Patched-like/NPC	22					17 (7)
Cytochrome P450 Enzymes	81	3.2 (8)	5.6 (5)
UDP-Glucoronosyltransferase	73	4.9 (11)	4.9 (4)
Nuclear Hormone Receptors	270		3.3 (10)
Peroxisome Localization	18		15 (3)
Collagen	179				2.8 (11)	12 (41)
Worm-Yeast Orthologs	1921				1.7 (72)
Lectins	220			2.8 (19)
Lipid Metabolism Genes	303	2.9 (27)
Cell Adhesion Genes	49					13.3 (12)
Cell Structure Genes	219					3.0 (12)
Mitochondria Localization	179				4.6 (18)
Biosynthesis	478			2.1 (31)	5.1 (53)
Basement Membrane	14				13 (4)
Fatty Acid Oxidation	48				4.8 (5)
Other Phosphatases	31			5.3 (5)
Carbohydrate Metabolism	121				4.9 (13)
Amino Acid Metabolism	104			5.0 (16)	7.0 (16)
Energy Generation Genes	117				6.2 (16)
Translation Factors	41			4.8 (6)
Transporters	407		2.9 (13)	2.9 (36)
Small Molecule Transport	561	2.2 (37)
Passive Channels	203	3.2 (20)
Protein Degradation	250			2.2 (17)
Protease	186			3.3 (19)
B. Gene expression mountains
			Representation factor (number overlap)
	Total on	Dauer-
Gene Classa	Array	enriched	Transient	Early	Climbing	Late
Genome	17761	540	195	538	386	325
mount 01	1818		1.7 (34)	1.5 (85)
mount 06	909	4.5 (126)	2.8 (28)
mount 08	803	2.2 (55)			2.6 (45)
mount 14	353				6.3 (49)	26 (169)
mount 15	247	8.6 (65)
mount 16	230				5.6 (28)	11.5 (49)
mount 19	189			8.8 (51)	5.8 (24)
mount 20	160			3.9 (19)	5.1 (18)
mount 21	154	2.8 (13)	16 (27)	4.0 (19)
mount 22	151	2.8 (13)
mount 23	143				3.8 (12)
mount 24	133		10 (15)	7.9 (32)
mount 27	87			11 (30)
mount 29	40					12 (9)
mount 31	25			9.2 (7)
mount 41	7			19 (4)
aOver-represented functional classes in the dauer recovery subgroups. For clarity, gene groups with p>0.001 are
not listed. See Supplemental Data for full comparisons. Gene lists are shown in Supplemental Table [5].
bAll representation factors are significant at p<0.001. The probability was determined using the normal
approximation of the hypergeometric probability distribution.