CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g02880

Gene name TPK1 (THIAMIN PYROPHOSPHOKINASE1)

Module size 5 genes

NF 0.20

%ile 18.5

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
0.21 15.8 1.00 At1g02880 839303 TPK1 (THIAMIN PYROPHOSPHOKINASE1) Encodes a thiamine pyrophosphokinase capable of producing thiamine pyrophosphate from free thiamine. O.I. H.G. S.X.
0.57 73.8 0.84 At5g09690 830828 magnesium transporter CorA-like family protein (MRS2-7) F:metal ion transmembrane transporter activity;P:metal ion transport;C:membrane;PFOMB O.I. H.G. S.X.
0.31 33.8 0.82 At3g03120 821079 ATARFB1C (ADP-ribosylation factor B1C) A member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to ADP-ribosylation factor 1; ARF 1 (GP:385340) {Drosophila melanogaster}, other ARFs and ARF-like proteins. O.I. H.G. S.X.
0.22 17.5 0.81 At5g64180 836539 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFB O.I. H.G. S.X.
0.08 2.3 0.81 At3g20480 821594 tetraacyldisaccharide 4'-kinase family protein F:tetraacyldisaccharide 4'-kinase activity;P:lipid A biosynthetic process;C:membrane;OBPM O.I. H.G. S.X.

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
91.9 99.9 E-MEXP-807-raw-cel-1173273144
70.0 99.9 E-MEXP-807-raw-cel-1173273252
59.1 99.8 E-MEXP-807-raw-cel-1173273088
58.3 99.8 E-MEXP-807-raw-cel-1173273060
54.1 99.8 E-MEXP-807-raw-cel-1173273223
50.6 99.8 E-MEXP-807-raw-cel-1173273196
48.9 99.8 E-MEXP-807-raw-cel-1173273116
35.6 99.7 E-MEXP-807-raw-cel-1173273170
10.2 99.2 GSM134457 St.Clair_1-82_294_Mt-0_0.30mM-SA-in-0.02%-silwet_Rep1_ATH1 GSE5758 Expression Level Polymorphism Project (ELP) - Mt-0
8.9 99.0 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.5 99.0 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0006772 The chemical reactions and pathways involving thiamin (vitamin B1), a water soluble vitamin present in fresh vegetables and meats, especially liver.
0.167 1 GO:0009245 The chemical reactions and pathways resulting in the formation of lipid A, the glycolipid moiety of bacterial lipopolysaccharides, consisting of six fatty acyl chains linked to two glucosamine residues.
0.020 1 GO:0030001 The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

Inter-species module comparison

A co-expression module including the grape gene, 1616760_at, orthologous to the query gene, At1g02880

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.57 79.8 1616760_at - hypothetical protein LOC100246863 - 3e-9 At1g02880 TPK1 (THIAMIN PYROPHOSPHOKINASE1) O.I. H.G. S.X.
0.46 66.5 1610149_at - hypothetical protein LOC100267843 - 2e-3 At1g27760 interferon-related developmental regulator family protein / IFRD protein family O.I. H.G. S.X.
0.42 60.1 1621150_at - hypothetical protein LOC100248338 - 1e-8 At5g39040 ATTAP2 O.I. H.G. S.X.
0.42 60.1 1612501_at - with no lysine kinase - 2e+0 At5g62050 OXA1 O.I. H.G. S.X.
0.33 45.7 1622317_at - - - 4e-1 At4g00810 60S acidic ribosomal protein P1 (RPP1B) O.I. H.G. S.X.
0.28 37.7 1619005_at - - - 3e-14 At5g46410 NLI interacting factor (NIF) family protein O.I. H.G. S.X.
0.26 32.0 1622463_at - hypothetical protein LOC100252976 - 2e-22 At1g21065 unknown protein O.I. H.G. S.X.
0.23 27.5 1610863_at - cullin 1 - 2e-19 At4g02570 ATCUL1 (ARABIDOPSIS THALIANA CULLIN 1) O.I. H.G. S.X.
0.20 22.4 1611871_at - dehydroascorbate reductase - 2e-9 At1g19570 DHAR1 (dehydroascorbate reductase) O.I. H.G. S.X.

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

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