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
OMAT3P101260	0.99842	-	AT3G04150	germin-like protein, putative	-	-
OMAT2P011170	0.99813	-	AT2G41390	unknown protein	-	-
OMAT2P011180	0.997367	-	AT2G41400	unknown protein	-	-
OMAT3P115360	0.997186	-	AT3G61880	CYP78A9 (CYTOCHROME P450 78A9)	-	-
OMAT1P105310	0.99687	-	AT1G15825	hydroxyproline-rich glycoprotein family protein	AT1G15830	unknown protein
OMAT2P112250	0.996252	-	AT2G47120	short-chain dehydrogenase/reductase (SDR) family protein	-	-
OMAT1P106400	0.995852	-	AT1G19900	glyoxal oxidase-related	-	-
OMAT1P023370	0.995727	-	AT1G78500	pentacyclic triterpene synthase, putative	-	-
OMAT3P115700	0.99529	-	AT3G62730	unknown protein	-	-
OMAT3P107210	0.992018	-	AT3G21730	dihydroneopterin aldolase family protein	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
OMAT1P102990	-0.839837	-	AT1G09620	ATP binding / aminoacyl-tRNA ligase/ leucine-tRNA ligase/ nucleotide binding	-	-
OMAT4P002200	-0.746113	-	AT4G09000	14-3-3-like protein GF14 chi / general regulatory factor 1 (GRF1)	-	-
OMAT4P111660	-0.732845	-	AT4G38510	vacuolar ATP synthase subunit B, putative / V-ATPase B subunit, putative / vacuolar proton pump B subunit, putative / V-ATPase 57 kDa subunit, putative	-	-
OMAT1P100160	-0.721647	-	AT1G01440	extra-large G-protein-related	-	-
OMAT2P112470	-0.720662	-	AT2G47900	AtTLP3 (TUBBY LIKE PROTEIN 3)	-	-
OMAT5P101150	-0.712335	-	AT5G04710	aspartyl aminopeptidase, putative	-	-
OMAT5P016980	-0.705308	-	AT5G57020	NMT1 (MYRISTOYL-COA:PROTEIN N-MYRISTOYLTRANSFERASE)	-	-
OMAT1P103000	-0.70482	-	AT1G09620	ATP binding / aminoacyl-tRNA ligase/ leucine-tRNA ligase/ nucleotide binding	-	-
OMAT5P108480	-0.693624	-	AT5G32470	FUNCTIONS IN: molecular_function unknown	-	-
OMAT3P107170	-0.689872	-	AT3G21640,AT3G21650	[AT3G21640]TWD1 (TWISTED DWARF 1), [AT3G21650]serine/threonine protein phosphatase 2A (PP2A) regulatory subunit B', putative	-	-

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	12/200	4.46	3.58e-06	-	no
B	4	GO:0008610	lipid biosynthetic process	10/200	4.56	1.47e-05	-	no
B	4	GO:0044283	small molecule biosynthetic process	15/200	3.30	1.50e-05	-	no
B	3	GO:0019748	secondary metabolic process	10/200	4.32	2.40e-05	-	no
B	5	GO:0043436	oxoacid metabolic process	13/200	2.95	1.52e-04	-	no
B	4	GO:0006082	organic acid metabolic process	13/200	2.94	1.57e-04	-	no
B	4	GO:0042180	cellular ketone metabolic process	13/200	2.90	1.85e-04	-	no
B	3	GO:0044281	small molecule metabolic process	17/200	1.89	4.13e-03	-	no

C	3	GO:0012505	endomembrane system	62/200	2.55	3.78e-13	-	yes
C	3	GO:0044464	cell part	134/200	1.46	4.06e-10	-	yes
C	4	GO:0031224	intrinsic to membrane	17/200	3.17	8.43e-06	-	no
C	3	GO:0044425	membrane part	17/200	2.15	1.05e-03	-	no
C	3	GO:0016020	membrane	42/200	1.53	1.61e-03	-	yes

M	3	GO:0016491	oxidoreductase activity	25/200	2.96	3.71e-07	-	no
M	3	GO:0003700	transcription factor activity	19/200	1.88	2.88e-03	-	no

PS	3	PO:0009006	shoot	136/200	1.25	2.77e-05	-	no
PS	3	PO:0006001	phyllome	126/200	1.23	3.15e-04	-	no
PS	4	PO:0009049	inflorescence	128/200	1.22	3.24e-04	-	no
PS	5	PO:0009046	flower	126/200	1.21	6.66e-04	-	no
PS	4	PO:0009001	fruit	117/200	1.19	3.25e-03	-	no
PS	3	PO:0006342	infructescence	117/200	1.19	3.25e-03	-	no

PG	3	PO:0007615	flower development stages	128/200	1.22	3.37e-04	-	no
PG	4	PO:0007616	4 anthesis	117/200	1.21	1.77e-03	-	no

KW	0	anthesis	-	60/200	4.57	6.46e-25	-	no
KW	0	stage	-	67/200	3.46	3.79e-21	-	no
KW	0	petal	-	53/200	3.63	1.65e-17	-	no
KW	0	expansion	-	53/200	3.61	2.27e-17	-	no
KW	0	differentiation	-	53/200	3.51	7.65e-17	-	no
KW	0	globular	-	24/200	6.40	8.95e-14	-	no
KW	0	endomembrane	-	62/200	2.62	1.10e-13	-	yes
KW	0	system	-	62/200	2.56	3.34e-13	-	yes
KW	0	visible	-	13/200	3.51	2.44e-05	-	no
KW	0	lipid	-	12/200	3.49	4.69e-05	-	no
KW	0	integral	-	11/200	3.08	2.72e-04	-	no
KW	0	leaves	-	13/200	2.63	4.95e-04	-	no
KW	0	membrane	-	42/200	1.58	9.14e-04	-	yes
KW	0	electron	-	10/200	2.81	9.80e-04	-	no
KW	0	transmembrane	-	16/200	2.20	1.06e-03	4.00E-63	yes
KW	0	putative	-	37/200	1.60	1.37e-03	-	no
KW	0	development	-	15/200	2.15	1.84e-03	-	no
KW	0	carrier	-	10/200	2.49	2.50e-03	-	no
KW	0	cotyledon	-	12/200	2.28	2.60e-03	-	no
KW	0	process	-	32/200	1.56	4.10e-03	-	no
KW	0	expanded	-	10/200	2.29	4.72e-03	-	no
KW	0	function	-	25/200	1.60	7.10e-03	4.00E-63	yes
KW	0	oxidoreductase	-	10/200	2.15	7.56e-03	-	no

(*1)	[B]:Biological process(Gene ontology), [C]:Cellular component(Gene ontology), [M]:Molecular function(Gene ontology), [PS]:Plant Structure(Plant ontology), [PG]:Growth and developmental stages(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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