Phatr_bicluster_0108 Residual: 0.11
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_0108 0.11 Phaeodactylum tricornutum
Displaying 1 - 13 of 13
PHATRDRAFT_12783 cell division cycle protein 20 homolog (COG2319)

PHATRDRAFT_12783 - cell division cycle protein 20 homolog (COG2319)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12783
PHATRDRAFT_36337 myb-like dna-binding domain containing protein (SANT)

PHATRDRAFT_36337 - myb-like dna-binding domain containing protein (SANT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36337
PHATRDRAFT_38652 (Motor_domain superfamily)

PHATRDRAFT_38652 - (Motor_domain superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38652
PHATRDRAFT_42951 viral a-type inclusion (Cast)

PHATRDRAFT_42951 - viral a-type inclusion (Cast)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42951
PHATRDRAFT_45068 cell wall surface anchor family protein

PHATRDRAFT_45068 - cell wall surface anchor family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45068
PHATRDRAFT_46095 cyclin b (CYCLIN)

PHATRDRAFT_46095 - cyclin b (CYCLIN)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46095
PHATRDRAFT_46203 cell surface flocculin

PHATRDRAFT_46203 - cell surface flocculin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46203
PHATRDRAFT_46314

PHATRDRAFT_46314 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46314
PHATRDRAFT_47183

PHATRDRAFT_47183 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47183
PHATRDRAFT_49227 (Anoctamin)

PHATRDRAFT_49227 - (Anoctamin)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49227
PHATRDRAFT_49305

PHATRDRAFT_49305 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49305
PHATRDRAFT_50280 mgc81656 protein (DUF1032 superfamily)

PHATRDRAFT_50280 - mgc81656 protein (DUF1032 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50280
PHATRDRAFT_54229 (FH2 superfamily)

PHATRDRAFT_54229 - (FH2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54229
GO ID Go Term p-value q-value Cluster
GO:0009186 deoxyribonucleoside diphosphate metabolism 0.00222167 1 Phatr_bicluster_0108
GO:0007018 microtubule-based movement 0.0220688 1 Phatr_bicluster_0108
GO:0000074 regulation of cell cycle 0.0249866 1 Phatr_bicluster_0108
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