Phatr_bicluster_0132 Residual: 0.29
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_0132 0.29 Phaeodactylum tricornutum
Displaying 1 - 31 of 31
PHATRDRAFT_14322 integrin alpha beta-propellor repeat protein

PHATRDRAFT_14322 - integrin alpha beta-propellor repeat protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14322
PHATRDRAFT_14712 (TRF4)

PHATRDRAFT_14712 - (TRF4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14712
PHATRDRAFT_14850 vps52 sac2 family protein (Sec3_C superfamily)

PHATRDRAFT_14850 - vps52 sac2 family protein (Sec3_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14850
PHATRDRAFT_14924 serine threonine-protein kinaseexpressed (PKc_like superfamily)

PHATRDRAFT_14924 - serine threonine-protein kinaseexpressed (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14924
PHATRDRAFT_15952 mgc80481 protein

PHATRDRAFT_15952 - mgc80481 protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15952
PHATRDRAFT_16904 heat shockprotein (DnaJ)

PHATRDRAFT_16904 - heat shockprotein (DnaJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16904
PHATRDRAFT_32491 dmt superfamily protein (EamA)

PHATRDRAFT_32491 - dmt superfamily protein (EamA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32491
PHATRDRAFT_40124 probable proline iminopeptidase pip (prolyl aminopeptidase) (pro_imino_pep_2)

PHATRDRAFT_40124 - probable proline iminopeptidase pip (prolyl aminopeptidase) (pro_imino_pep_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40124
PHATRDRAFT_40844 cellular apoptosis susceptibility protein (CAS_CSE1 superfamily)

PHATRDRAFT_40844 - cellular apoptosis susceptibility protein (CAS_CSE1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40844
PHATRDRAFT_41231 (DUF4505 superfamily)

PHATRDRAFT_41231 - (DUF4505 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41231
PHATRDRAFT_41894 had superfamily protein involved in n-acetyl-glucosamine catabolism-like (HAD-SF-IIA-hyp4)

PHATRDRAFT_41894 - had superfamily protein involved in n-acetyl-glucosamine catabolism-like (HAD-SF-IIA-hyp4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41894
PHATRDRAFT_43217

PHATRDRAFT_43217 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43217
PHATRDRAFT_43550 (ABC_ATPase)

PHATRDRAFT_43550 - (ABC_ATPase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43550
PHATRDRAFT_43813 ww domain binding protein 4

PHATRDRAFT_43813 - ww domain binding protein 4

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43813
PHATRDRAFT_44040 tpr repeat-containing protein (Glycos_transf_1 superfamily)

PHATRDRAFT_44040 - tpr repeat-containing protein (Glycos_transf_1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44040
PHATRDRAFT_44226 (TRAM_LAG1_CLN8 superfamily)

PHATRDRAFT_44226 - (TRAM_LAG1_CLN8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44226
PHATRDRAFT_44922 (Acylphosphatase superfamily)

PHATRDRAFT_44922 - (Acylphosphatase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44922
PHATRDRAFT_45274

PHATRDRAFT_45274 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45274
PHATRDRAFT_45340 (TRAPPC9-Trs120 superfamily)

PHATRDRAFT_45340 - (TRAPPC9-Trs120 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45340
PHATRDRAFT_46562 (Peptidase_S41_TRI)

PHATRDRAFT_46562 - (Peptidase_S41_TRI)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46562
PHATRDRAFT_47416 wd40 repeat protein (WD40 superfamily)

PHATRDRAFT_47416 - wd40 repeat protein (WD40 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47416
PHATRDRAFT_47595 gtp-binding protein (YihA_EngB)

PHATRDRAFT_47595 - gtp-binding protein (YihA_EngB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47595
PHATRDRAFT_47765 tetratricopeptide tpr_2 repeat protein (TPR_12)

PHATRDRAFT_47765 - tetratricopeptide tpr_2 repeat protein (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47765
PHATRDRAFT_47856 smad nuclear interacting protein (FHA)

PHATRDRAFT_47856 - smad nuclear interacting protein (FHA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47856
PHATRDRAFT_48852

PHATRDRAFT_48852 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48852
PHATRDRAFT_49144 (MhpC)

PHATRDRAFT_49144 - (MhpC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49144
PHATRDRAFT_49148

PHATRDRAFT_49148 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49148
PHATRDRAFT_49994 chromosome segregation 1-like (CAS_CSE1 superfamily)

PHATRDRAFT_49994 - chromosome segregation 1-like (CAS_CSE1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49994
PHATRDRAFT_54748 magnesium transporter (MgtE)

PHATRDRAFT_54748 - magnesium transporter (MgtE)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54748
PHATRDRAFT_6231 n-terminal domain containing protein

PHATRDRAFT_6231 - n-terminal domain containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6231
PHATRDRAFT_9017 upf0326 proteinexpressed (Peptidase_C97)

PHATRDRAFT_9017 - upf0326 proteinexpressed (Peptidase_C97)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9017
GO ID Go Term p-value q-value Cluster
GO:0006725 aromatic compound metabolism 0.0340932 1 Phatr_bicluster_0132
GO:0006508 proteolysis and peptidolysis 0.053216 1 Phatr_bicluster_0132
GO:0000074 regulation of cell cycle 0.0573612 1 Phatr_bicluster_0132
GO:0006457 protein folding 0.185684 1 Phatr_bicluster_0132
GO:0006468 protein amino acid phosphorylation 0.262204 1 Phatr_bicluster_0132
GO:0008152 metabolism 0.410263 1 Phatr_bicluster_0132
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