Co-expression analysis

Gene ID	At5g59690
Gene name	histone H4
Module size	5 genes
NF	0.78
%ile	93.6

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

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.	O.I.	H.G.	S.X.	Other DB
1.00	100.0	1.00	At5g59690	836090	histone H4	F:DNA binding;P:nucleosome assembly;C:thylakoid;MOPFV	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.89	94.6	0.92	At3g20670	821614	HTA13	Encodes HTA13, a histone H2A protein.	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.75	86.9	0.92	At1g09200	837440	histone H3	F:DNA binding;P:nucleosome assembly;C:nucleus, chloroplast, nucleosome;MFPO	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.67	81.6	0.91	At5g59870	836109	HTA6	Encodes HTA6, a histone H2A protein.	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.57	73.8	0.91	At1g07790	837293	HTB1	Encodes a histone 2B (H2B) protein.	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
28.1	99.7	GSM265432	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
22.9	99.6	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.8	99.4	GSM265433	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
13.6	99.4	GSM226553	Slice11JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
12.0	99.3	GSM226551	Slice9JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.8	99.3	E-MEXP-1443-raw-cel-1581869515
11.8	99.3	GSM311295	Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
11.2	99.2	GSM142661	MB002_ATH1_A1-Eland-ch1	GSE6153	Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
10.9	99.2	GSM184837	Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7	GSE7639	Expression analysis of root developmental zones after treatment with salt
10.1	99.2	E-MEXP-265-raw-cel-414617695
9.8	99.1	GSM265425	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
9.4	99.1	E-MEXP-265-raw-cel-414617890
9.3	99.1	GSM226552	Slice10JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.3	99.1	GSM226539	L9SB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.0	99.1	GSM265424	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment

Biological processes inferred to relate to the module

SF	Genes	GO ID	Process Name	Link to AmiGO
0.159	5	GO:0006334	The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.

KEGG PATHWAY inferred to related to the module

SF	Genes	KEGG ID	Pathway name	Link to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.

Glycine_max

Hordeum_vulgare

Oryza_sativa

Populus_trichocarpa

Triticum_aestivum

Vitis_vinifera

Zea_mays

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