Phatr_bicluster_0031 Residual: 0.36
Phaeodactylum tricornutum

Module Page Help

What is a module?

Regulatory units (modules) in the Network Portal are based on the network inference algorithm used. For the current version, modules are based on cMonkey modules and Inferelator regulatory influences on these modules. More specifically, module refers to set of genes that are conditionally co-regulated under subset of the conditions. Identification of modules integrates co-expression, de-novo motif identification, and other functional associations such as operon information and protein-protein interactions.

Expression Profiles

Expression profiles is a plot of the expression ratios (log10) of the module's genes, over all subset of the conditions included in the module. The X-axis represent conditions and the Y-axis represents log10 expression ratios. Each gene is plotted as line plot with different colors. Colored legend for the lines are presented under the plot. This plot is dynamic. Clicking on the gene names in the legend will show/hide the plot for that particular gene. A tooltip will show expression ratio information if you mouseover the lines in the plot.

Motif Locations

Location of the Identified motifs for the module in the upstream regions of the member genes are shown under the expression profiles plot. This plot shows the diagram of the upstream positions of the motifs, colored red and green for motifs #1, and 2, respectively. Intensity of the color is proportional to the significance of the occurence of that motif at a given location. Motifs on the forward and reverse strand are represented over and under the line respectively.

Regulators

For each module, single or AND logic connected regulatory influences are listed under the regulators tab. These regulatory influences are identified by Inferelator. Table shows name of the regulator and its type. tf: Transcription factor, ef: Environmental factor and combiner:Combinatorial influence of a tf or an ef through logic gate. Tabel is sortable by clicking on the arrows next to column headers.

Motifs

Transcription factor binding motifs help to elucidate regulatory mechanism. cMonkey integrates powerful de novo motif detection to identify conditionally co-regulated sets of genes. De novo predicted motifs for each module are listed in the module page as motif logo images along with associated prediction statistics (e-values). The main module page also shows the location of these motifs within the upstream sequences of the module member genes.
Title Residual Model version Organism
Phatr_bicluster_0031 0.36 Phaeodactylum tricornutum
Displaying 1 - 52 of 52
PHATRDRAFT_12329 glycosylgroup 2 family (Glyco_tranf_GTA_type superfamily)

PHATRDRAFT_12329 - glycosylgroup 2 family (Glyco_tranf_GTA_type superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12329
PHATRDRAFT_12379 mgc154358 protein (Mpv17_PMP22)

PHATRDRAFT_12379 - mgc154358 protein (Mpv17_PMP22)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12379
PHATRDRAFT_12612 class-ii glutamine amidotransferase domain protein (YafJ)

PHATRDRAFT_12612 - class-ii glutamine amidotransferase domain protein (YafJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12612
PHATRDRAFT_13004 josephin domain containing 2 (Josephin superfamily)

PHATRDRAFT_13004 - josephin domain containing 2 (Josephin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13004
PHATRDRAFT_13208 gcn5-related n-acetyltransferase (NAT_SF)

PHATRDRAFT_13208 - gcn5-related n-acetyltransferase (NAT_SF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13208
PHATRDRAFT_13789 adenylate kinase 3 (adk)

PHATRDRAFT_13789 - adenylate kinase 3 (adk)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13789
PHATRDRAFT_14962 cystathionine gamma-synthase (MetC)

PHATRDRAFT_14962 - cystathionine gamma-synthase (MetC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14962
PHATRDRAFT_15140 trehalose-6-phosohate synthase (PRK14501)

PHATRDRAFT_15140 - trehalose-6-phosohate synthase (PRK14501)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15140
PHATRDRAFT_15145 v-typec subunit family protein (ATP-synt_C superfamily)

PHATRDRAFT_15145 - v-typec subunit family protein (ATP-synt_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15145
PHATRDRAFT_17166 ac073942_7a pr00989 protein from homo sapiens gi (COPIIcoated_ERV)

PHATRDRAFT_17166 - ac073942_7a pr00989 protein from homo sapiens gi (COPIIcoated_ERV)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_17166
PHATRDRAFT_17928 vacuolar type h+-atpase proteolipid subunit (ATP-synt_C superfamily)

PHATRDRAFT_17928 - vacuolar type h+-atpase proteolipid subunit (ATP-synt_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_17928
PHATRDRAFT_19513 gamma-glutamyltransferase glutathione gamma-glutamylcysteinyltransferase (G_glu_transpept)

PHATRDRAFT_19513 - gamma-glutamyltransferase glutathione gamma-glutamylcysteinyltransferase (G_glu_transpept)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_19513
PHATRDRAFT_22145 phg1a protein (EMP70 superfamily)

PHATRDRAFT_22145 - phg1a protein (EMP70 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22145
PHATRDRAFT_2782 lung seven transmembrane receptor 1 (Lung_7-TM_R superfamily)

PHATRDRAFT_2782 - lung seven transmembrane receptor 1 (Lung_7-TM_R superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_2782
PHATRDRAFT_32160

PHATRDRAFT_32160 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32160
PHATRDRAFT_32535 dmt family transporter: drug metabolite (EamA)

PHATRDRAFT_32535 - dmt family transporter: drug metabolite (EamA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32535
PHATRDRAFT_33013 rad17 homolog (Rad17)

PHATRDRAFT_33013 - rad17 homolog (Rad17)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33013
PHATRDRAFT_33014 nitrilotriacetate monooxygenase component b (COG1853)

PHATRDRAFT_33014 - nitrilotriacetate monooxygenase component b (COG1853)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33014
PHATRDRAFT_34534 phosphoglycerate bisphosphoglycerate mutase family protein (HP superfamily)

PHATRDRAFT_34534 - phosphoglycerate bisphosphoglycerate mutase family protein (HP superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34534
PHATRDRAFT_34975 mgc84241 protein (Cyt-b5)

PHATRDRAFT_34975 - mgc84241 protein (Cyt-b5)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34975
PHATRDRAFT_35623 gdp-mannose mannosyl hydrolase (Nudix_Hydrolase superfamily)

PHATRDRAFT_35623 - gdp-mannose mannosyl hydrolase (Nudix_Hydrolase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35623
PHATRDRAFT_36102

PHATRDRAFT_36102 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36102
PHATRDRAFT_39888

PHATRDRAFT_39888 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39888
PHATRDRAFT_4129 camp-dependent protein kinase (STKc_AGC)

PHATRDRAFT_4129 - camp-dependent protein kinase (STKc_AGC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4129
PHATRDRAFT_42002 endomembrane protein (EMP70 superfamily)

PHATRDRAFT_42002 - endomembrane protein (EMP70 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42002
PHATRDRAFT_42466 heat shock protein

PHATRDRAFT_42466 - heat shock protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42466
PHATRDRAFT_42816

PHATRDRAFT_42816 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42816
PHATRDRAFT_42822 (PHD)

PHATRDRAFT_42822 - (PHD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42822
PHATRDRAFT_43098

PHATRDRAFT_43098 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43098
PHATRDRAFT_43224 quiescin q6 sulfhydryl oxidase 2 (PDI_a_family)

PHATRDRAFT_43224 - quiescin q6 sulfhydryl oxidase 2 (PDI_a_family)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43224
PHATRDRAFT_43530 kco1 (ca2+ activated outward rectifying k+ channel 1) calcium-activated potassium channel outward rectifier potassium channel (Ion_trans_2)

PHATRDRAFT_43530 - kco1 (ca2+ activated outward rectifying k+ channel 1) calcium-activated potassium channel outward rectifier potassium channel (Ion_trans_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43530
PHATRDRAFT_43646 major facilitator superfamily protein (MFS)

PHATRDRAFT_43646 - major facilitator superfamily protein (MFS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43646
PHATRDRAFT_43742

PHATRDRAFT_43742 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43742
PHATRDRAFT_44684 (HSF_DNA-bind superfamily)

PHATRDRAFT_44684 - (HSF_DNA-bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44684
PHATRDRAFT_45059

PHATRDRAFT_45059 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45059
PHATRDRAFT_45314

PHATRDRAFT_45314 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45314
PHATRDRAFT_45321 (Methyltransf_21)

PHATRDRAFT_45321 - (Methyltransf_21)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45321
PHATRDRAFT_45325 high affinity sulfate transporter (SUL1)

PHATRDRAFT_45325 - high affinity sulfate transporter (SUL1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45325
PHATRDRAFT_45414 (Glyco_transf_64 superfamily)

PHATRDRAFT_45414 - (Glyco_transf_64 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45414
PHATRDRAFT_45626 (DUF547 superfamily)

PHATRDRAFT_45626 - (DUF547 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45626
PHATRDRAFT_45992 novel proteinvertebrate methylmalonic aciduria (cobalamin deficiency) type b (Cob_adeno_trans)

PHATRDRAFT_45992 - novel proteinvertebrate methylmalonic aciduria (cobalamin deficiency) type b (Cob_adeno_trans)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45992
PHATRDRAFT_46313

PHATRDRAFT_46313 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46313
PHATRDRAFT_46526 (Aph-1 superfamily)

PHATRDRAFT_46526 - (Aph-1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46526
PHATRDRAFT_46692 phosphate transporter (2A0109)

PHATRDRAFT_46692 - phosphate transporter (2A0109)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46692
PHATRDRAFT_46877 (O-FucT_like)

PHATRDRAFT_46877 - (O-FucT_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46877
PHATRDRAFT_47057 (NT_PAP_TUTase)

PHATRDRAFT_47057 - (NT_PAP_TUTase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47057
PHATRDRAFT_48400

PHATRDRAFT_48400 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48400
PHATRDRAFT_49258 protein kinase family (PPR_2)

PHATRDRAFT_49258 - protein kinase family (PPR_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49258
PHATRDRAFT_50257 core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

PHATRDRAFT_50257 - core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50257
PHATRDRAFT_52108 glycosyl hydrolases family 38expressed (GH38N_AMII_LAM_like)

PHATRDRAFT_52108 - glycosyl hydrolases family 38expressed (GH38N_AMII_LAM_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52108
PHATRDRAFT_6052 cg4196-isoform c (COG2119)

PHATRDRAFT_6052 - cg4196-isoform c (COG2119)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6052
PHATRDRAFT_8859 rna pseudouridylate synthase domain containing 2 (PseudoU_synth superfamily)

PHATRDRAFT_8859 - rna pseudouridylate synthase domain containing 2 (PseudoU_synth superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8859
GO ID Go Term p-value q-value Cluster
GO:0005992 trehalose biosynthesis 0.00887241 1 Phatr_bicluster_0031
GO:0015986 ATP synthesis coupled proton transport 0.0113395 1 Phatr_bicluster_0031
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0478862 1 Phatr_bicluster_0031
GO:0006810 transport 0.0499962 1 Phatr_bicluster_0031
GO:0006355 regulation of transcription, DNA-dependent 0.0698674 1 Phatr_bicluster_0031
GO:0006813 potassium ion transport 0.0854465 1 Phatr_bicluster_0031
GO:0006520 amino acid metabolism 0.101687 1 Phatr_bicluster_0031
GO:0006260 DNA replication 0.109704 1 Phatr_bicluster_0031
GO:0006396 RNA processing 0.222148 1 Phatr_bicluster_0031
GO:0008152 metabolism 0.379876 1 Phatr_bicluster_0031
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