Phatr_bicluster_0183 Residual: 0.27
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_0183 0.27 Phaeodactylum tricornutum
Displaying 1 - 30 of 30
PHATRDRAFT_10239 prli-interacting factor (COG0523)

PHATRDRAFT_10239 - prli-interacting factor (COG0523)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10239
PHATRDRAFT_10247 cg17119-isoform a (2A43)

PHATRDRAFT_10247 - cg17119-isoform a (2A43)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10247
PHATRDRAFT_14103 rag c (RagC_like)

PHATRDRAFT_14103 - rag c (RagC_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14103
PHATRDRAFT_14600 hnh endonuclease (HNHc)

PHATRDRAFT_14600 - hnh endonuclease (HNHc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14600
PHATRDRAFT_14843 isoform cra_b (HECTc superfamily)

PHATRDRAFT_14843 - isoform cra_b (HECTc superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14843
PHATRDRAFT_21228 trna phosphotransferase 1 (PTS_2-RNA)

PHATRDRAFT_21228 - trna phosphotransferase 1 (PTS_2-RNA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21228
PHATRDRAFT_28797 stearoyl-desaturase (delta-9-desaturase) (Delta9-FADS-like)

PHATRDRAFT_28797 - stearoyl-desaturase (delta-9-desaturase) (Delta9-FADS-like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28797
PHATRDRAFT_33360

PHATRDRAFT_33360 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33360
PHATRDRAFT_37848

PHATRDRAFT_37848 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37848
PHATRDRAFT_3851 (AIM24)

PHATRDRAFT_3851 - (AIM24)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_3851
PHATRDRAFT_39098

PHATRDRAFT_39098 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39098
PHATRDRAFT_39269 cog3538: uncharacterized conserved protein (DUF1237 superfamily)

PHATRDRAFT_39269 - cog3538: uncharacterized conserved protein (DUF1237 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39269
PHATRDRAFT_39288

PHATRDRAFT_39288 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39288
PHATRDRAFT_39968

PHATRDRAFT_39968 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39968
PHATRDRAFT_44951 bass family transporter: sodium ion bile acid (SBF superfamily)

PHATRDRAFT_44951 - bass family transporter: sodium ion bile acid (SBF superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44951
PHATRDRAFT_45460 serine threonine protein kinase (Ubox)

PHATRDRAFT_45460 - serine threonine protein kinase (Ubox)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45460
PHATRDRAFT_46950

PHATRDRAFT_46950 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46950
PHATRDRAFT_47323 xenotropic and polytropic murine leukemia virus receptor xpr1 (EXS superfamily)

PHATRDRAFT_47323 - xenotropic and polytropic murine leukemia virus receptor xpr1 (EXS superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47323
PHATRDRAFT_47495

PHATRDRAFT_47495 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47495
PHATRDRAFT_47724 serine threonine kinase family protein (TPR_12)

PHATRDRAFT_47724 - serine threonine kinase family protein (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47724
PHATRDRAFT_47990 viral a-type inclusion

PHATRDRAFT_47990 - viral a-type inclusion

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47990
PHATRDRAFT_48483

PHATRDRAFT_48483 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48483
PHATRDRAFT_48971 carboxyl-terminal processing protease (Peptidase_S41 superfamily)

PHATRDRAFT_48971 - carboxyl-terminal processing protease (Peptidase_S41 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48971
PHATRDRAFT_49878

PHATRDRAFT_49878 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49878
PHATRDRAFT_50141 (YrhK)

PHATRDRAFT_50141 - (YrhK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50141
PHATRDRAFT_50220 serine threonine protein kinase (Ubox)

PHATRDRAFT_50220 - serine threonine protein kinase (Ubox)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50220
PHATRDRAFT_50589

PHATRDRAFT_50589 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50589
PHATRDRAFT_50605 capsular polysaccharide biosynthesisprotein (DUF563)

PHATRDRAFT_50605 - capsular polysaccharide biosynthesisprotein (DUF563)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50605
PHATRDRAFT_52444 atcen2 calcium ion binding (PTZ00183)

PHATRDRAFT_52444 - atcen2 calcium ion binding (PTZ00183)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52444
PHATRDRAFT_54892 zinc finger (c3hc4-type ring finger) family protein (vWFA superfamily)

PHATRDRAFT_54892 - zinc finger (c3hc4-type ring finger) family protein (vWFA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54892
GO ID Go Term p-value q-value Cluster
GO:0006388 tRNA splicing 0.0019758 1 Phatr_bicluster_0183
GO:0016567 protein ubiquitination 0.00814771 1 Phatr_bicluster_0183
GO:0007186 G-protein coupled receptor protein signaling pathway 0.0254203 1 Phatr_bicluster_0183
GO:0006633 fatty acid biosynthesis 0.0254203 1 Phatr_bicluster_0183
GO:0006512 ubiquitin cycle 0.0727206 1 Phatr_bicluster_0183
GO:0006464 protein modification 0.118 1 Phatr_bicluster_0183
GO:0006508 proteolysis and peptidolysis 0.365994 1 Phatr_bicluster_0183
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