CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Ptp.777.1.A1_at

Gene name
Homology with Arabidopsis Similar to At4g05530: IBR1 (INDOLE-3-BUTYRIC ACID RESPONSE 1) (HF=7e+0)

Module size 6 genes

NF 0.36

%ile 62.3

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.53 80.5 0.95 Ptp.777.1.A1_at CV236864 - - 7e+0 At4g05530 IBR1 (INDOLE-3-BUTYRIC ACID RESPONSE 1) O.I. H.G. S.X.
0.50 78.6 0.95 PtpAffx.206211.1.S1_at pmrna12333 hypothetical protein - 2e-19 At3g13060 - O.I. H.G. S.X.
0.38 63.7 0.94 Ptp.6835.1.A1_at CV245044 - - 1e+0 At3g25770 AOC2 (ALLENE OXIDE CYCLASE 2) O.I. H.G. S.X.
0.33 57.5 0.96 PtpAffx.29282.1.A1_at BP934395 hypothetical protein - 9e-13 At5g27450 MK (MEVALONATE KINASE) O.I. H.G. S.X.
0.29 50.5 0.96 PtpAffx.206211.1.S1_x_at pmrna12333 hypothetical protein - 2e-19 At3g13060 - O.I. H.G. S.X.
0.14 23.5 0.95 Ptp.6370.3.S1_a_at CK091400 hypothetical protein - 6e+0 At3g23635 RTFL13 (ROTUNDIFOLIA LIKE 13) O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.	Other DB
0.50	78.6	0.96	Ptp.5438.1.S1_at	CK106216	hypothetical protein	-	1e-14	At1g80600	WIN1 (HOPW1-1-INTERACTING 1)	O.I.	H.G.	S.X.
0.44	71.9	0.93	PtpAffx.18543.1.S1_at	CV244150	hypothetical protein	-	2e-58	At2g23070	casein kinase II alpha chain, putative	O.I.	H.G.	S.X.
0.44	71.9	0.95	Ptp.7028.1.S1_s_at	DN488937	hypothetical protein	-	6e-6	At1g13580	LAG13 (LAG1 LONGEVITY ASSURANCE HOMOLOG 3)	O.I.	H.G.	S.X.
0.44	71.9	0.96	PtpAffx.201816.1.S1_s_at	pmrna3616	hypothetical protein	-	4e-54	At1g21370	unknown protein	O.I.	H.G.	S.X.
0.40	67.0	0.93	PtpAffx.85797.1.S1_s_at	BU812872	hypothetical protein	-	3e-1	At1g01540	protein kinase family protein	O.I.	H.G.	S.X.
0.40	67.0	0.94	Ptp.2927.2.S1_at	DN499742	tubulin gamma complex-associated protein /// tubulin gamma complex-associated protein	-	5e-47	At5g06680	SPC98 (SPINDLE POLE BODY COMPONENT 98)	O.I.	H.G.	S.X.
0.38	63.7	0.94	PtpAffx.207808.1.S1_at	pmrna15519	hypothetical protein	-	2e-113	At1g65540	calcium-binding EF hand family protein	O.I.	H.G.	S.X.
0.36	61.6	0.93	Ptp.3569.1.S1_at	DN493050	hypothetical protein	-	3e-5	At2g46620	AAA-type ATPase family protein	O.I.	H.G.	S.X.
0.35	59.7	0.91	PtpAffx.215369.1.S1_x_at	pmrna29515	hypothetical protein	-	5e-18	At1g31930	XLG3 (extra-large GTP-binding protein 3)	O.I.	H.G.	S.X.
0.32	55.2	0.93	PtpAffx.35608.1.S1_at	CV229376	hypothetical protein	-	3e-8	At5g24260	prolyl oligopeptidase family protein	O.I.	H.G.	S.X.
0.32	55.2	0.95	Ptp.7715.1.S1_a_at	DN498741	hypothetical protein	-	2e-46	At5g24520	TTG1 (TRANSPARENT TESTA GLABRA 1)	O.I.	H.G.	S.X.
0.31	53.7	0.94	PtpAffx.224390.1.S1_s_at	pmrna42876	hypothetical protein	-	8e-6	At1g25390	protein kinase family protein	O.I.	H.G.	S.X.
0.30	52.0	0.92	Ptp.5536.1.S1_at	CV254150	hypothetical protein	-	2e+0	At2g29450	ATGSTU5 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 5)	O.I.	H.G.	S.X.
0.29	50.5	0.90	Ptp.3055.1.S1_s_at	CK110358	hypothetical protein	-	6e+0	At5g43860	ATCLH2	O.I.	H.G.	S.X.
0.29	50.5	0.94	PtpAffx.225329.1.S1_at	pmrna44595	hypothetical protein	-	3e-1	At4g05440	EDA35 (embryo sac development arrest 35)	O.I.	H.G.	S.X.
0.27	47.1	0.95	PtpAffx.140860.1.A1_at	CV269162	-	-	8e-12	At1g32120	unknown protein	O.I.	H.G.	S.X.
0.27	47.1	0.94	PtpAffx.128342.1.S1_s_at	CN550415	hypothetical protein	-	1e-6	At5g45900	APG7 (AUTOPHAGY 7)	O.I.	H.G.	S.X.
0.25	43.6	0.95	PtpAffx.122496.1.S1_at	CN524369	hypothetical protein	-	3e-26	At1g03590	catalytic/ protein serine/threonine phosphatase	O.I.	H.G.	S.X.

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
3.8 94.9 GSM327406 Populus balsamifera_1006_young_leaf_midday_3 GSE13990 Populus balsamifera developmental tissue series
3.0 92.9 GSM372099 Clone3200_LPI5_N+_8w_rep1 GSE14893 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 3200
3.0 92.9 GSM327656 Populus balsamifera_Female_Catkin_midday_1 GSE13990 Populus balsamifera developmental tissue series
2.8 92.1 GSM327404 Populus balsamifera_1006_young_leaf_midday_1 GSE13990 Populus balsamifera developmental tissue series
2.7 91.8 GSM362890 Clone1979_LPI5_N-_4w_rep2 GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979
2.6 91.3 GSM328105 Populus x canescens leaf hypoxia_rep_01 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.6 91.3 GSM362886 Clone1979_LPI2_N-_4w_rep2 GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979
2.2 89.3 GSM362888 Clone1979_LPI5_N+_4w_rep2 GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979
2.1 88.6 GSM362887 Clone1979_LPI5_N+_4w_rep1 GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979
2.0 88.0 GSM327405 Populus balsamifera_1006_young_leaf_midday_2 GSE13990 Populus balsamifera developmental tissue series

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Arabidopsis_thaliana
Glycine_max
Hordeum_vulgare
Oryza_sativa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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