CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os04g0116200

Gene name
Homology with Arabidopsis Similar to At1g44830: AP2 domain-containing transcription factor TINY, putative (HF=6e-1)

Module size 17 genes

NF 0.32

%ile 34.8

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
0.68 87.5 0.70 Os04g0116200 AK064677.1 - Conserved hypothetical protein 6e-1 At1g44830 AP2 domain-containing transcription factor TINY, putative O.I. H.G. S.X.
0.69 87.9 0.88 Os02g0704800 BM420590 - Ornithine carbamoyltransferase OOCT1 (EC 2.1.3.3) 2e+0 At1g52680 late embryogenesis abundant protein-related / LEA protein-related O.I. H.G. S.X.
0.64 83.4 0.84 Os06g0707700 AK100720.1 - Disease resistance protein family protein 1e+0 At4g37220 stress-responsive protein, putative O.I. H.G. S.X.
0.59 78.0 0.85 Os07g0610400 9635.m04199 - - 6e+0 At4g25890 60S acidic ribosomal protein P3 (RPP3A) O.I. H.G. S.X.
0.53 71.3 0.83 Os02g0282500 9630.m01709 - NBS-LRR protein (Fragment) 3e-1 At1g32990 PRPL11 (PLASTID RIBOSOMAL PROTEIN L11) O.I. H.G. S.X.
0.52 69.6 0.89 Os12g0129000 9640.m00264 - Eukaryotic protein of unknown function DUF872family protein 3e-1 At5g65350 histone H3 O.I. H.G. S.X.
0.49 64.4 0.86 Os12g0199100 AK065572.1 - Disease resistance protein family protein 2e+0 At5g49590 unknown protein O.I. H.G. S.X.
0.48 63.7 0.89 Os04g0380200 AK104769.1 - Conserved hypothetical protein 1e-1 At3g27210 unknown protein O.I. H.G. S.X.
0.47 62.3 0.90 Os08g0129400 9636.m00269 - - 4e+0 At1g22520 unknown protein O.I. H.G. S.X.
0.41 52.4 0.88 Os09g0447300 CB675967 - Cytochrome P450 family protein 2e+0 At3g52060 unknown protein O.I. H.G. S.X.
0.25 24.1 0.89 Os01g0282400 NM_187704.1 - - 2e+1 At5g25280 serine-rich protein-related O.I. H.G. S.X.
0.21 17.9 0.96 Os07g0639200 9635.m04476 - - 3e+0 At3g14840 leucine-rich repeat family protein / protein kinase family protein O.I. H.G. S.X.
0.21 17.9 0.96 Os01g0541900 CB622869 - Protein kinase domain containing protein 1e+0 At3g28250 glycosyl hydrolase family protein 17 O.I. H.G. S.X.
0.19 15.1 0.88 Os01g0621300 NM_192847.1 - Conserved hypothetical protein 8e-2 At4g11740 SAY1 O.I. H.G. S.X.
0.08 4.2 0.82 Os04g0110200 AK070186.1 - Conserved hypothetical protein 4e-1 At3g55880 unknown protein O.I. H.G. S.X.
0.07 3.7 0.76 Os01g0960900 NM_189357.1 - TGF-beta receptor, type I/II extracellular regionfamily protein 5e-2 At3g28840 unknown protein O.I. H.G. S.X.
0.05 2.5 0.83 Os05g0583600 AK108848.1 - Uncharacterized plant-specific domain containingprotein 6e-1 At2g13463 unknown protein O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
16.7 98.8 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.1 98.4 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.8 98.4 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.4 98.3 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.3 98.3 GSM377082 Genomic DNA - 45 day old leaf sample - mutant g9799 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.6 98.2 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.6 98.2 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.4 98.2 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.1 98.2 GSM377080 Genomic DNA - 45 day old leaf sample - mutant g6728 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.3 98.1 GSM377072 Genomic DNA - 45 day old leaf sample - mutant d1137 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.012 1 GO:0006915 A form of programmed cell death that begins when a cell receives internal or external signals that trigger the activity of proteolytic caspases, proceeds through a series of characteristic stages typically including rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), and plasma membrane blebbing (but maintenance of its integrity until the final stages of the process), and ends with the death of the cell.

Inter-species module comparison

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

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