GO analysis on genes upregulated on phenanthrene Gene to GO BP Conditional test for over-representation

GOBPID	Pvalue	OddsRatio	ExpCount	Count	Size	Term
GO:0009628	0.000	3.738	19	58	1021	response to abiotic stimulus
GO:0019748	0.000	6.471	6	31	315	secondary metabolic process
GO:0010035	0.000	5.573	6	29	334	response to inorganic substance
GO:0046686	0.000	5.673	5	25	279	response to cadmium ion
GO:0006575	0.000	6.412	4	21	208	amino acid derivative metabolic process
GO:0009407	0.000	17.939	1	10	41	toxin catabolic process
GO:0009737	0.000	5.247	5	21	249	response to abscisic acid stimulus
GO:0006979	0.000	5.336	4	20	233	response to oxidative stress
GO:0009636	0.000	13.045	1	10	53	response to toxin
GO:0009651	0.000	4.538	5	21	287	response to salt stress
GO:0050832	0.000	9.723	1	11	74	defense response to fungus
GO:0006725	0.000	4.965	4	18	227	cellular aromatic compound metabolic process
GO:0009611	0.000	7.720	2	12	100	response to wounding
GO:0009813	0.000	10.606	1	9	56	flavonoid biosynthetic process
GO:0006869	0.000	6.721	2	11	102	lipid transport
GO:0009269	0.000	27.407	0	5	15	response to desiccation
GO:0009056	0.000	2.819	10	27	580	catabolic process
GO:0006099	0.000	36.438	0	4	10	tricarboxylic acid cycle
GO:0010224	0.000	12.677	1	6	32	response to UV-B
GO:0050896	0.000	6.530	2	9	127	response to stimulus
GO:0045333	0.000	11.364	1	6	35	cellular respiration
GO:0051707	0.000	4.421	3	11	159	response to other organism
GO:0009109	0.000	21.858	0	4	14	coenzyme catabolic process
GO:0009414	0.000	4.559	2	10	134	response to water deprivation
GO:0002376	0.000	3.851	3	12	185	immune system process
GO:0009753	0.000	4.287	3	10	139	response to jasmonic acid stimulus
GO:0009631	0.000	15.609	0	4	18	cold acclimation
GO:0045087	0.000	3.832	3	11	170	innate immune response
GO:0009751	0.000	4.434	2	9	121	response to salicylic acid stimulus
GO:0042435	0.000	8.830	1	5	36	indole derivative biosynthetic process
GO:0006094	0.000	27.244	0	3	9	gluconeogenesis
GO:0010120	0.000	27.244	0	3	9	camalexin biosynthetic process
GO:0016998	0.001	12.852	0	4	21	cell wall catabolic process
GO:0009719	0.001	2.290	10	22	575	response to endogenous stimulus
GO:0046217	0.001	23.351	0	3	10	indole phytoalexin metabolic process
GO:0052315	0.001	23.351	0	3	10	phytoalexin biosynthetic process
GO:0006084	0.001	11.498	0	4	23	acetyl-CoA metabolic process
GO:0042430	0.001	7.602	1	5	41	indole and derivative metabolic process
GO:0046482	0.001	108.671	0	2	3	para-aminobenzoic acid metabolic process
GO:0046364	0.001	10.402	0	4	25	monosaccharide biosynthetic process
GO:0006096	0.001	7.016	1	5	44	glycolysis
GO:0051186	0.001	3.167	4	11	203	cofactor metabolic process
GO:0044275	0.001	4.038	2	8	117	cellular carbohydrate catabolic process
GO:0019320	0.001	5.305	1	6	68	hexose catabolic process
GO:0042221	0.001	2.143	11	22	728	response to chemical stimulus
GO:0006807	0.002	2.451	7	16	379	nitrogen compound metabolic process
GO:0009617	0.002	6.319	1	5	49	response to bacterium
GO:0006950	0.002	2.390	7	16	485	response to stress
GO:0009627	0.002	8.088	1	4	31	systemic acquired resistance
GO:0009620	0.003	7.767	1	4	33	response to fungus
GO:0009699	0.003	5.726	1	5	54	phenylpropanoid biosynthetic process
GO:0046164	0.003	4.631	1	6	77	alcohol catabolic process
GO:0009808	0.003	7.529	1	4	33	lignin metabolic process
GO:0042631	0.003	36.219	0	2	5	cellular response to water deprivation
GO:0009695	0.004	10.892	0	3	18	jasmonic acid biosynthetic process
GO:0042538	0.004	6.615	1	4	37	hyperosmotic salinity response
GO:0010188	0.005	27.163	0	2	6	response to microbial phytotoxin
GO:0009416	0.006	2.192	7	15	394	response to light stimulus
GO:0031407	0.006	9.075	0	3	21	oxylipin metabolic process
GO:0031540	0.007	21.729	0	2	7	regulation of anthocyanin biosynthetic process
GO:0009991	0.007	4.480	1	5	66	response to extracellular stimulus
GO:0046283	0.007	8.597	0	3	22	anthocyanin metabolic process
GO:0006586	0.008	8.167	0	3	23	indolalkylamine metabolic process
GO:0010150	0.008	8.167	0	3	23	leaf senescence
GO:0019430	0.009	18.107	0	2	8	removal of superoxide radicals
GO:0042128	0.009	18.107	0	2	8	nitrate assimilation
GO:0042558	0.009	18.107	0	2	8	pteridine and derivative metabolic process
GO:0046688	0.009	18.107	0	2	8	response to copper ion
GO:0006082	0.009	1.894	10	19	576	organic acid metabolic process
GO:0042742	0.010	2.832	3	8	163	defense response to bacterium
GO:0010039	0.011	15.519	0	2	9	response to iron ion
GO:0046685	0.011	15.519	0	2	9	response to arsenic
GO:0006752	0.011	7.100	0	3	26	group transfer coenzyme metabolic process
GO:0042493	0.013	4.742	1	4	50	response to drug
GO:0006952	0.013	2.268	5	11	296	defense response
GO:0009861	0.013	13.693	0	2	10	jasmonic acid and ethylene-dependent systemic resistance
GO:0032787	0.014	2.242	5	11	281	monocarboxylic acid metabolic process
GO:0010149	0.015	6.280	1	3	29	senescence
GO:0006829	0.016	12.069	0	2	11	zinc ion transport
GO:0006649	0.018	Inf	0	1	1	phospholipid transfer to membrane
GO:0009643	0.018	Inf	0	1	1	photosynthetic acclimation
GO:0009715	0.018	Inf	0	1	1	chalcone biosynthetic process
GO:0010111	0.018	Inf	0	1	1	glyoxysome organization
GO:0010299	0.018	Inf	0	1	1	detoxification of cobalt ion
GO:0010312	0.018	Inf	0	1	1	detoxification of zinc ion
GO:0015690	0.018	Inf	0	1	1	aluminum ion transport
GO:0019477	0.018	Inf	0	1	1	L-lysine catabolic process
GO:0019595	0.018	Inf	0	1	1	non-phosphorylated glucose catabolic process
GO:0030397	0.018	Inf	0	1	1	membrane disassembly
GO:0032101	0.018	Inf	0	1	1	regulation of response to external stimulus
GO:0032107	0.018	Inf	0	1	1	regulation of response to nutrient levels
GO:0042180	0.018	Inf	0	1	1	cellular ketone metabolic process
GO:0009625	0.019	10.862	0	2	12	response to insect
GO:0006800	0.020	5.629	1	3	32	oxygen and reactive oxygen species metabolic process
GO:0006857	0.022	3.964	1	4	59	oligopeptide transport
GO:0001666	0.023	9.874	0	2	13	response to hypoxia
GO:0006006	0.023	3.928	1	4	60	glucose metabolic process
GO:0009409	0.028	2.321	4	8	199	response to cold
GO:0044271	0.028	2.487	3	7	161	nitrogen compound biosynthetic process
GO:0005996	0.031	2.999	2	5	97	monosaccharide metabolic process
GO:0042401	0.031	4.663	1	3	38	biogenic amine biosynthetic process
GO:0052544	0.033	7.756	0	2	16	callose deposition in cell wall during defense response
GO:0007047	0.035	2.099	4	9	244	cell wall organization
GO:0002697	0.036	54.169	0	1	2	regulation of immune effector process
GO:0006569	0.036	54.169	0	1	2	tryptophan catabolic process
GO:0009446	0.036	54.169	0	1	2	putrescine biosynthetic process
GO:0009961	0.036	54.169	0	1	2	response to 1-aminocyclopropane-1-carboxylic acid
GO:0010266	0.036	54.169	0	1	2	response to vitamin B1
GO:0010315	0.036	54.169	0	1	2	auxin efflux
GO:0010421	0.036	54.169	0	1	2	hydrogen peroxide-mediated programmed cell death
GO:0015904	0.036	54.169	0	1	2	tetracycline transport
GO:0019496	0.036	54.169	0	1	2	serine-isocitrate lyase pathway
GO:0030002	0.036	54.169	0	1	2	cellular anion homeostasis
GO:0030643	0.036	54.169	0	1	2	cellular phosphate ion homeostasis
GO:0043620	0.036	54.169	0	1	2	regulation of transcription in response to stress
GO:0046900	0.036	54.169	0	1	2	tetrahydrofolylpolyglutamate metabolic process
GO:0050691	0.036	54.169	0	1	2	regulation of defense response to virus by host
GO:0051176	0.036	54.169	0	1	2	positive regulation of sulfur metabolic process
GO:0055061	0.036	54.169	0	1	2	di-, tri-valent inorganic anion homeostasis
GO:0009723	0.039	2.501	2	6	137	response to ethylene stimulus
GO:0006767	0.040	3.252	1	4	71	water-soluble vitamin metabolic process
GO:0016265	0.041	2.754	2	5	104	death
GO:0012501	0.042	3.214	1	4	72	programmed cell death
GO:0055085	0.042	3.204	1	4	72	transmembrane transport
GO:0000162	0.046	6.387	0	2	19	tryptophan biosynthetic process
GO:0009084	0.046	6.387	0	2	19	glutamine family amino acid biosynthetic process
GO:0052386	0.046	6.387	0	2	19	cell wall thickening
GO:0046483	0.048	2.371	3	6	146	heterocycle metabolic process
GO:0009743	0.049	2.186	3	7	182	response to carbohydrate stimulus

GO analysis on genes downregulated on phenanthrene Gene to GO BP Conditional test for over-representation

GOBPID	Pvalue	OddsRatio	ExpCount	Count	Size	Term
GO:0015979	0.000	31.360	1	22	48	photosynthesis
GO:0055114	0.000	19.561	2	26	71	oxidation reduction
GO:0009773	0.000	120.910	0	11	14	photosynthetic electron transport in photosystem I
GO:0009628	0.000	2.733	30	72	1007	response to abiotic stimulus
GO:0015995	0.000	16.470	1	11	33	chlorophyll biosynthetic process
GO:0033014	0.000	11.301	2	13	51	tetrapyrrole biosynthetic process
GO:0006778	0.000	8.735	2	14	67	porphyrin metabolic process
GO:0042742	0.000	4.931	5	21	163	defense response to bacterium
GO:0042440	0.000	6.164	3	16	102	pigment metabolic process
GO:0009416	0.000	3.522	9	28	302	response to light stimulus
GO:0010205	0.000	163.047	0	5	6	photoinhibition
GO:0009409	0.000	3.956	7	23	217	response to cold
GO:0010207	0.000	39.196	0	6	11	photosystem II assembly
GO:0009637	0.000	16.435	1	8	24	response to blue light
GO:0051188	0.000	4.857	4	16	125	cofactor biosynthetic process
GO:0009987	0.000	1.520	242	296	8073	cellular process
GO:0008152	0.000	1.681	102	144	3768	metabolic process
GO:0018119	0.000	21.770	0	6	15	peptidyl-cysteine S-nitrosylation
GO:0019684	0.000	21.065	0	6	16	photosynthesis, light reaction
GO:0010206	0.000	130.194	0	4	5	photosystem II repair
GO:0010218	0.000	10.076	1	8	34	response to far red light
GO:0015976	0.000	17.810	1	6	17	carbon utilization
GO:0010114	0.000	7.975	1	9	46	response to red light
GO:0009772	0.000	65.093	0	4	6	photosynthetic electron transport in photosystem II
GO:0045038	0.000	65.093	0	4	6	protein import into chloroplast thylakoid membrane
GO:0006000	0.000	Inf	0	3	3	fructose metabolic process
GO:0006412	0.000	2.399	14	31	463	translation
GO:0046483	0.000	3.303	6	17	187	heterocycle metabolic process
GO:0009071	0.000	26.033	0	4	9	serine family amino acid catabolic process
GO:0009765	0.000	99.296	0	3	4	photosynthesis, light harvesting
GO:0009768	0.000	97.464	0	3	4	photosynthesis, light harvesting in photosystem I
GO:0010196	0.000	97.464	0	3	4	nonphotochemical quenching
GO:0009733	0.000	2.843	7	19	240	response to auxin stimulus
GO:0043085	0.000	9.324	1	6	27	positive regulation of catalytic activity
GO:0019253	0.000	21.693	0	4	10	reductive pentose-phosphate cycle
GO:0009744	0.000	6.930	1	7	40	response to sucrose stimulus
GO:0009853	0.000	8.512	1	6	29	photorespiration
GO:0051707	0.000	2.212	13	28	449	response to other organism
GO:0009769	0.000	48.729	0	3	5	photosynthesis, light harvesting in photosystem II
GO:0019464	0.000	48.729	0	3	5	glycine decarboxylation via glycine cleavage system
GO:0042549	0.000	48.729	0	3	5	photosystem II stabilization
GO:0009743	0.000	3.190	5	14	159	response to carbohydrate stimulus
GO:0009657	0.000	7.065	1	6	34	plastid organization
GO:0009767	0.000	33.664	0	3	6	photosynthetic electron transport chain
GO:0006544	0.001	13.013	0	4	14	glycine metabolic process
GO:0006979	0.001	2.593	7	17	233	response to oxidative stress
GO:0009902	0.001	24.362	0	3	7	chloroplast relocation
GO:0051644	0.001	24.362	0	3	7	plastid localization
GO:0035304	0.001	Inf	0	2	2	regulation of protein amino acid dephosphorylation
GO:0010027	0.001	10.843	0	4	16	thylakoid membrane organization
GO:0005996	0.001	3.248	4	11	122	monosaccharide metabolic process
GO:0042254	0.001	3.248	4	11	122	ribosome biogenesis
GO:0042548	0.001	19.596	0	3	8	regulation of photosynthesis, light reaction
GO:0009611	0.002	3.080	4	11	128	response to wounding
GO:0065009	0.002	3.843	2	8	76	regulation of molecular function
GO:0006461	0.002	3.116	3	10	115	protein complex assembly
GO:0010362	0.003	64.855	0	2	3	negative regulation of anion channel activity by blue light
GO:0032413	0.003	64.855	0	2	3	negative regulation of ion transmembrane transporter activity
GO:0051051	0.003	64.855	0	2	3	negative regulation of transport
GO:0044042	0.003	3.306	3	9	98	glucan metabolic process
GO:0051656	0.003	13.919	0	3	10	establishment of organelle localization
GO:0009644	0.004	5.477	1	5	35	response to high light intensity
GO:0009750	0.004	12.178	0	3	11	response to fructose stimulus
GO:0031324	0.004	3.806	2	7	67	negative regulation of cellular metabolic process
GO:0043933	0.004	2.149	8	17	277	macromolecular complex subunit organization
GO:0034622	0.005	2.258	7	15	233	cellular macromolecular complex assembly
GO:0009310	0.006	4.786	1	5	39	amine catabolic process
GO:0022607	0.007	2.100	8	16	266	cellular component assembly
GO:0009612	0.008	8.855	0	3	14	response to mechanical stimulus
GO:0009739	0.008	2.747	3	9	116	response to gibberellin stimulus
GO:0010190	0.008	21.616	0	2	5	cytochrome b6f complex assembly
GO:0010359	0.008	21.616	0	2	5	regulation of anion channel activity
GO:0022898	0.008	21.616	0	2	5	regulation of transmembrane transporter activity
GO:0042592	0.009	2.398	5	11	161	homeostatic process
GO:0044264	0.010	2.671	4	9	119	cellular polysaccharide metabolic process
GO:0006457	0.011	2.171	6	13	209	protein folding
GO:0007623	0.011	4.067	1	5	45	circadian rhythm
GO:0019252	0.011	7.492	0	3	16	starch biosynthetic process
GO:0010304	0.012	16.211	0	2	6	PSII associated light-harvesting complex II catabolic process
GO:0016123	0.012	16.211	0	2	6	xanthophyll biosynthetic process
GO:0019220	0.012	16.211	0	2	6	regulation of phosphate metabolic process
GO:0005982	0.013	6.990	1	3	17	starch metabolic process
GO:0006352	0.013	4.815	1	4	31	transcription initiation
GO:0009828	0.013	4.815	1	4	31	plant-type cell wall loosening
GO:0009749	0.016	6.492	1	3	18	response to glucose stimulus
GO:0009719	0.016	1.548	21	32	714	response to endogenous stimulus
GO:0010035	0.016	1.817	10	18	343	response to inorganic substance
GO:0019320	0.016	3.151	2	6	68	hexose catabolic process
GO:0006006	0.017	3.100	2	6	69	glucose metabolic process
GO:0009058	0.018	1.259	101	120	3348	biosynthetic process
GO:0019288	0.022	10.806	0	2	8	isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway
GO:0046688	0.022	10.806	0	2	8	response to copper ion
GO:0009411	0.024	3.252	2	5	55	response to UV
GO:0019752	0.025	1.560	17	26	574	carboxylic acid metabolic process
GO:0042221	0.028	1.441	26	36	888	response to chemical stimulus
GO:0046164	0.028	2.750	2	6	77	alcohol catabolic process
GO:0006783	0.028	9.262	0	2	9	heme biosynthetic process
GO:0009751	0.029	2.307	4	8	121	response to salicylic acid stimulus
GO:0019685	0.030	Inf	0	1	1	photosynthesis, dark reaction
GO:0008631	0.030	Inf	0	1	1	induction of apoptosis by oxidative stress
GO:0009405	0.030	Inf	0	1	1	pathogenesis
GO:0009800	0.030	Inf	0	1	1	cinnamic acid biosynthetic process
GO:0010028	0.030	Inf	0	1	1	xanthophyll cycle
GO:0010378	0.030	Inf	0	1	1	temperature compensation of the circadian clock
GO:0016480	0.030	Inf	0	1	1	negative regulation of transcription from RNA polymerase III promoter
GO:0018316	0.030	Inf	0	1	1	peptide cross-linking via L-cystine
GO:0032527	0.030	Inf	0	1	1	protein exit from endoplasmic reticulum
GO:0043617	0.030	Inf	0	1	1	cellular response to sucrose starvation
GO:0051973	0.030	Inf	0	1	1	positive regulation of telomerase activity
GO:0034284	0.031	4.868	1	3	23	response to monosaccharide stimulus
GO:0005975	0.033	1.473	21	30	700	carbohydrate metabolic process
GO:0006869	0.034	2.399	3	7	102	lipid transport
GO:0009145	0.034	4.636	1	3	24	purine nucleoside triphosphate biosynthetic process
GO:0006879	0.035	8.104	0	2	10	cellular iron ion homeostasis
GO:0006949	0.035	8.104	0	2	10	syncytium formation
GO:0006753	0.037	2.349	3	7	104	nucleoside phosphate metabolic process
GO:0009605	0.038	2.191	4	8	129	response to external stimulus
GO:0048527	0.039	3.331	1	4	43	lateral root development
GO:0009061	0.041	7.203	0	2	11	anaerobic respiration
GO:0009646	0.041	7.203	0	2	11	response to absence of light
GO:0010025	0.041	7.203	0	2	11	wax biosynthetic process
GO:0046490	0.041	7.203	0	2	11	isopentenyl diphosphate metabolic process
GO:0009658	0.042	3.265	1	4	44	chloroplast organization
GO:0009141	0.042	4.232	1	3	26	nucleoside triphosphate metabolic process
GO:0006096	0.042	3.248	1	4	44	glycolysis
GO:0051094	0.042	3.248	1	4	44	positive regulation of developmental process
GO:0046686	0.043	1.726	8	14	279	response to cadmium ion
GO:0016116	0.046	4.056	1	3	27	carotenoid metabolic process
GO:0045454	0.049	3.093	1	4	46	cell redox homeostasis
GO:0009638	0.049	6.482	0	2	12	phototropism