Phatr_bicluster_0045 Residual: 0.40
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_0045 0.40 Phaeodactylum tricornutum
Displaying 1 - 45 of 45
PHATRDRAFT_10291 proteintkl group (Pkinase_Tyr)

PHATRDRAFT_10291 - proteintkl group (Pkinase_Tyr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10291
PHATRDRAFT_12641 protein phosphatase 2c (PP2Cc)

PHATRDRAFT_12641 - protein phosphatase 2c (PP2Cc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12641
PHATRDRAFT_12786 protein phosphatase 2c (PP2Cc)

PHATRDRAFT_12786 - protein phosphatase 2c (PP2Cc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12786
PHATRDRAFT_14922 dass family transporter: sodium ion sulfate (ArsB_NhaD_permease superfamily)

PHATRDRAFT_14922 - dass family transporter: sodium ion sulfate (ArsB_NhaD_permease superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14922
PHATRDRAFT_15468 (PAS_9)

PHATRDRAFT_15468 - (PAS_9)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15468
PHATRDRAFT_15625 mgc84142 protein (moaA)

PHATRDRAFT_15625 - mgc84142 protein (moaA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15625
PHATRDRAFT_16606 (COG1773)

PHATRDRAFT_16606 - (COG1773)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16606
PHATRDRAFT_16632 peroxisomal membrane mpv17 pmp22-like protein (Mpv17_PMP22)

PHATRDRAFT_16632 - peroxisomal membrane mpv17 pmp22-like protein (Mpv17_PMP22)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16632
PHATRDRAFT_33199

PHATRDRAFT_33199 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33199
PHATRDRAFT_33327

PHATRDRAFT_33327 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33327
PHATRDRAFT_34324 (dna directed) polypeptide39 kda isoform 1 (RNA_pol_Rpc34 superfamily)

PHATRDRAFT_34324 - (dna directed) polypeptide39 kda isoform 1 (RNA_pol_Rpc34 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34324
PHATRDRAFT_37877 jumonji domain containing 5 (Cupin_8)

PHATRDRAFT_37877 - jumonji domain containing 5 (Cupin_8)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37877
PHATRDRAFT_37964 growth hormone-inducible soluble protein

PHATRDRAFT_37964 - growth hormone-inducible soluble protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37964
PHATRDRAFT_38623 (PAP_fibrillin superfamily)

PHATRDRAFT_38623 - (PAP_fibrillin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38623
PHATRDRAFT_40271 fad-dependent oxidoreductase family protein (DadA)

PHATRDRAFT_40271 - fad-dependent oxidoreductase family protein (DadA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40271
PHATRDRAFT_40656

PHATRDRAFT_40656 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40656
PHATRDRAFT_42671

PHATRDRAFT_42671 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42671
PHATRDRAFT_44048 phosphoglycerate mutase family protein (HP_PGM_like)

PHATRDRAFT_44048 - phosphoglycerate mutase family protein (HP_PGM_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44048
PHATRDRAFT_44305 possible transmembrane protein (DUF1275)

PHATRDRAFT_44305 - possible transmembrane protein (DUF1275)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44305
PHATRDRAFT_44929

PHATRDRAFT_44929 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44929
PHATRDRAFT_46384 fad dependent oxidoreductase (GCV_T)

PHATRDRAFT_46384 - fad dependent oxidoreductase (GCV_T)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46384
PHATRDRAFT_4674 pp-loop superfamily atpase (PRK10696)

PHATRDRAFT_4674 - pp-loop superfamily atpase (PRK10696)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4674
PHATRDRAFT_47167

PHATRDRAFT_47167 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47167
PHATRDRAFT_47250 phosphatidate cytidylyltransferase (CdsA)

PHATRDRAFT_47250 - phosphatidate cytidylyltransferase (CdsA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47250
PHATRDRAFT_47351 ser thr protein phosphatase family protein (MPP_PPP_family)

PHATRDRAFT_47351 - ser thr protein phosphatase family protein (MPP_PPP_family)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47351
PHATRDRAFT_47365 at3g06980 f17a9_13 (DEXDc superfamily)

PHATRDRAFT_47365 - at3g06980 f17a9_13 (DEXDc superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47365
PHATRDRAFT_4741 cathepsin z (Peptidase_C1 superfamily)

PHATRDRAFT_4741 - cathepsin z (Peptidase_C1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4741
PHATRDRAFT_47548

PHATRDRAFT_47548 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47548
PHATRDRAFT_47618

PHATRDRAFT_47618 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47618
PHATRDRAFT_47742 cytochrome oxidase subunit 1 (MAPEG)

PHATRDRAFT_47742 - cytochrome oxidase subunit 1 (MAPEG)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47742
PHATRDRAFT_48315 putative choline transporter (BCCT)

PHATRDRAFT_48315 - putative choline transporter (BCCT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48315
PHATRDRAFT_48445 ki1 protein (PI-PLCXDc_plant)

PHATRDRAFT_48445 - ki1 protein (PI-PLCXDc_plant)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48445
PHATRDRAFT_48957

PHATRDRAFT_48957 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48957
PHATRDRAFT_49171 sensory box histidinepossible photoreceptor (PAS_9)

PHATRDRAFT_49171 - sensory box histidinepossible photoreceptor (PAS_9)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49171
PHATRDRAFT_49237

PHATRDRAFT_49237 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49237
PHATRDRAFT_49453 gcn5-related n-acetyltransferase (NAT_SF)

PHATRDRAFT_49453 - gcn5-related n-acetyltransferase (NAT_SF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49453
PHATRDRAFT_49497

PHATRDRAFT_49497 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49497
PHATRDRAFT_49660 macrophage migration inhibitory factor i (4Oxalocrotonate_Tautomerase superfamily)

PHATRDRAFT_49660 - macrophage migration inhibitory factor i (4Oxalocrotonate_Tautomerase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49660
PHATRDRAFT_49669 (Glyco_transf_25 superfamily)

PHATRDRAFT_49669 - (Glyco_transf_25 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49669
PHATRDRAFT_49993

PHATRDRAFT_49993 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49993
PHATRDRAFT_50076 myotubularin (agap009563-pa) (Myotub-related)

PHATRDRAFT_50076 - myotubularin (agap009563-pa) (Myotub-related)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50076
PHATRDRAFT_50305 (bHLH-MYC_N superfamily)

PHATRDRAFT_50305 - (bHLH-MYC_N superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50305
PHATRDRAFT_50439

PHATRDRAFT_50439 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50439
PHATRDRAFT_54778 calcium-translocating p-typepmca-type family protein (ATPase-IIB_Ca)

PHATRDRAFT_54778 - calcium-translocating p-typepmca-type family protein (ATPase-IIB_Ca)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54778
PHATRDRAFT_8760 doublecortin-like kinase 3 (S_TKc)

PHATRDRAFT_8760 - doublecortin-like kinase 3 (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8760
GO ID Go Term p-value q-value Cluster
GO:0007165 signal transduction 0.00193423 1 Phatr_bicluster_0045
GO:0006470 protein amino acid dephosphorylation 0.00455754 1 Phatr_bicluster_0045
GO:0046839 phospholipid dephosphorylation 0.00543344 1 Phatr_bicluster_0045
GO:0005978 glycogen biosynthesis 0.0108387 1 Phatr_bicluster_0045
GO:0006546 glycine catabolism 0.0162159 1 Phatr_bicluster_0045
GO:0006777 Mo-molybdopterin cofactor biosynthesis 0.0321806 1 Phatr_bicluster_0045
GO:0008654 phospholipid biosynthesis 0.0478978 1 Phatr_bicluster_0045
GO:0006813 potassium ion transport 0.103469 1 Phatr_bicluster_0045
GO:0006350 transcription 0.108364 1 Phatr_bicluster_0045
GO:0000160 two-component signal transduction system (phosphorelay) 0.132461 1 Phatr_bicluster_0045
Log in to post comments