Other supporting information

Gene Model

Correlation Plot

Expression profile (Values are plotted in Log(2) values.)

Genes with related expresssion profiles.

Positively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
OMAT3P112440	0.905436	-	AT3G52790	peptidoglycan-binding LysM domain-containing protein	-	-
OMAT2P103830	0.903738	-	AT2G22510	hydroxyproline-rich glycoprotein family protein	-	-
OMAT2P112290	0.903104	-	AT2G47200	unknown protein	-	-
OMAT5P102560	0.900738	-	AT5G09520,AT5G09530	[AT5G09520]hydroxyproline-rich glycoprotein family protein, [AT5G09530]hydroxyproline-rich glycoprotein family protein	-	-
OMAT2P111070	0.897024	-	AT2G43390	unknown protein	-	-
OMAT5P011250	0.889299	-	AT5G41040	transferase family protein	-	-
OMAT5P108980	0.887308	-	AT5G37690	GDSL-motif lipase/hydrolase family protein	-	-
OMAT1P117250	0.886631	-	AT1G68850	peroxidase, putative	-	-
OMAT2P002920	0.885301	-	AT2G18370	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	-	-
OMAT3P106100	0.884733	-	AT3G18400	anac058 (Arabidopsis NAC domain containing protein 58)	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
OMAT5P100160	-0.647207	-	AT5G01410	RSR4 (REDUCED SUGAR RESPONSE 4)	-	-
OMAT1P106765	-0.602356	-	AT1G20960	emb1507 (embryo defective 1507)	-	-
OMAT3P007110	-0.588314	-	AT3G18790	FUNCTIONS IN: molecular_function unknown	-	-
OMAT5P100480	-0.587907	-	AT5G02530	RNA and export factor-binding protein, putative	-	-
OMAT1P112490	-0.578422	-	AT1G51510	Y14	-	-
OMAT1P018870	-0.578283	-	AT1G67660	DNA binding / nuclease	-	-
OMAT2P102000	-0.567072	-	AT2G16485	DNA binding / nucleic acid binding / protein binding / zinc ion binding	-	-
OMAT1P107130	-0.566786	-	AT1G22200	unknown protein	-	-
OMAT3P113230	-0.566042	-	AT3G54760	dentin sialophosphoprotein-related	-	-
OMAT1P112440	-0.563367	-	AT1G51310	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 1.00e-06	:20 terms with high significance
1.00e-06 <	p-value	<= 8.76e-06	:With considering multiple testing correction; p <= 1.00e-02 / 1142
8.76e-06 <	p-value	<= 1.00e-02

Type of term (*1)	Depth of the term in ontology tree	ID/Term	Description	Number of genes	Over-Representative rate (*2)	p-value (*3)	PosMed p-value (*4) (Link to PosMed)	Found on gene annotation
B	4	GO:0006629	lipid metabolic process	17/200	3.91	4.48e-07	-	no
B	4	GO:0044255	cellular lipid metabolic process	11/200	4.09	1.89e-05	-	no
B	4	GO:0044283	small molecule biosynthetic process	12/200	2.64	7.02e-04	-	no
B	3	GO:0006810	transport	20/200	1.95	1.51e-03	8.46E-16	yes
B	3	GO:0051234	establishment of localization	20/200	1.95	1.56e-03	-	yes
B	5	GO:0043436	oxoacid metabolic process	11/200	2.50	1.69e-03	-	no
B	4	GO:0006082	organic acid metabolic process	11/200	2.49	1.73e-03	-	no
B	4	GO:0042180	cellular ketone metabolic process	11/200	2.45	1.98e-03	-	no
B	5	GO:0051252	regulation of RNA metabolic process	11/200	2.10	6.63e-03	-	no
B	5	GO:0032774	RNA biosynthetic process	11/200	2.01	9.43e-03	-	no

C	3	GO:0012505	endomembrane system	66/200	2.72	2.34e-15	-	no
C	3	GO:0044464	cell part	133/200	1.45	1.01e-09	-	yes
C	4	GO:0031224	intrinsic to membrane	14/200	2.61	3.53e-04	-	no
C	3	GO:0044425	membrane part	15/200	1.90	6.15e-03	-	no

M	3	GO:0016491	oxidoreductase activity	25/200	2.96	3.71e-07	-	no
M	5	GO:0046872	metal ion binding	29/200	2.14	3.64e-05	-	no
M	4	GO:0043169	cation binding	30/200	2.09	4.19e-05	-	no
M	3	GO:0043167	ion binding	30/200	2.09	4.19e-05	-	no
M	3	GO:0003700	transcription factor activity	19/200	1.88	2.88e-03	-	no

PS	3	PO:0009005	root	116/200	1.29	8.22e-05	1.43E-16	yes
PS	4	PO:0009001	fruit	124/200	1.26	9.77e-05	-	yes
PS	3	PO:0006342	infructescence	124/200	1.26	9.77e-05	-	yes
PS	3	PO:0009010	seed	122/200	1.25	2.24e-04	-	yes
PS	4	PO:0009009	embryo	119/200	1.23	5.74e-04	2.90E-16	yes
PS	5	PO:0008037	seedling	109/200	1.23	1.27e-03	-	yes
PS	3	PO:0009006	shoot	128/200	1.18	2.12e-03	1.15E-17	yes

KW	0	hypocotyl	-	27/200	11.57	5.54e-22	-	no
KW	0	system	-	67/200	2.77	5.40e-16	-	no
KW	0	endomembrane	-	66/200	2.79	5.99e-16	-	no
KW	0	stage	-	58/200	3.00	2.61e-15	-	yes
KW	0	anthesis	-	46/200	3.50	1.21e-14	-	yes
KW	0	expansion	-	44/200	2.99	1.07e-11	-	yes
KW	0	petal	-	43/200	2.95	3.12e-11	-	yes
KW	0	differentiation	-	43/200	2.84	9.85e-11	-	yes
KW	0	globular	-	20/200	5.33	2.39e-10	-	no
KW	0	carrier	-	16/200	3.99	6.87e-07	4.26E-16	no
KW	0	flower	-	21/200	2.75	9.21e-06	-	no
KW	0	inhibitor	-	12/200	4.01	1.11e-05	-	no
KW	0	lipid	-	12/200	3.49	4.69e-05	-	no
KW	0	electron	-	12/200	3.37	6.76e-05	-	no
KW	0	shoot	-	10/200	3.77	8.13e-05	1.15E-17	no
KW	0	alpha	-	18/200	2.47	1.45e-04	-	no
KW	0	biosynthetic	-	17/200	2.38	3.24e-04	-	no
KW	0	synthase	-	12/200	2.73	5.14e-04	-	no
KW	0	process	-	35/200	1.71	5.81e-04	-	no
KW	0	integral	-	10/200	2.80	9.94e-04	6.76E-17	no
KW	0	visible	-	10/200	2.70	1.35e-03	8.05E-17	yes
KW	0	transport	-	19/200	1.95	1.89e-03	8.46E-16	yes
KW	0	hydrolase	-	15/200	2.06	2.86e-03	-	no
KW	0	catalytic	-	19/200	1.87	3.10e-03	-	no
KW	0	group	-	12/200	2.23	3.15e-03	-	no
KW	0	leaves	-	11/200	2.22	4.36e-03	9.21E-17	yes
KW	0	transmembrane	-	14/200	1.93	6.56e-03	-	no
KW	0	conserved	-	22/200	1.63	9.07e-03	-	no
KW	0	transferase	-	12/200	1.96	9.10e-03	-	no

(*1)	[B]:Biological process(Gene ontology), [C]:Cellular component(Gene ontology), [M]:Molecular function(Gene ontology), [PS]:Plant Structure(Plant ontology), [KW]:words found in gene description.
(*2)	([# of genes with the term] / [# of sampling (200)]) / ([# of genes with the term among whole genes] / [# of whole genes])
(*3)	P-values were calculated on hypergeometric distribution in which we found n genes with a annotation term during 200 highly correlated genes, while we had N genes with the term in the whole genes.
(*4)	PosMed is a system which serve a p-values showing a relationship between the gene and the annotation term based on literature information and Gene-Gene interaction suchas co-expression or protein-protein interactions.

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