Phatr_bicluster_0114 Residual: 0.31
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_0114 0.31 Phaeodactylum tricornutum
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Displaying 1 - 25 of 25
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PHATRDRAFT_10974 phosphatidylinositol-4-phosphate 5-11335-7537 (MORN superfamily)

PHATRDRAFT_10974 - phosphatidylinositol-4-phosphate 5-11335-7537 (MORN superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10974
PHATRDRAFT_11154 (sufA)

PHATRDRAFT_11154 - (sufA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11154
PHATRDRAFT_11271 (Ist1)

PHATRDRAFT_11271 - (Ist1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11271
PHATRDRAFT_12309 g10 protein (G10)

PHATRDRAFT_12309 - g10 protein (G10)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12309
PHATRDRAFT_13557 2og-fe oxygenase familyexpressed (P4Hc)

PHATRDRAFT_13557 - 2og-fe oxygenase familyexpressed (P4Hc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13557
PHATRDRAFT_14696 peptidyl-prolyl cis-transcyclophilin type (Pro_isomerase)

PHATRDRAFT_14696 - peptidyl-prolyl cis-transcyclophilin type (Pro_isomerase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14696
PHATRDRAFT_31658

PHATRDRAFT_31658 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31658
PHATRDRAFT_33195

PHATRDRAFT_33195 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33195
PHATRDRAFT_33765

PHATRDRAFT_33765 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33765
PHATRDRAFT_37738 l-a virus gag protein n-acetyltransferase (RimI)

PHATRDRAFT_37738 - l-a virus gag protein n-acetyltransferase (RimI)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37738
PHATRDRAFT_41220 at5g47860 mca23_20 (DUF1350 superfamily)

PHATRDRAFT_41220 - at5g47860 mca23_20 (DUF1350 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41220
PHATRDRAFT_42605

PHATRDRAFT_42605 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42605
PHATRDRAFT_42683 phospholipase c-delta1 (PI-PLCc_eukaryota)

PHATRDRAFT_42683 - phospholipase c-delta1 (PI-PLCc_eukaryota)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42683
PHATRDRAFT_43138

PHATRDRAFT_43138 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43138
PHATRDRAFT_44433 lysyl hydroxylase

PHATRDRAFT_44433 - lysyl hydroxylase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44433
PHATRDRAFT_44454 metallo-beta-lactamase superfamily protein (COG1237 superfamily)

PHATRDRAFT_44454 - metallo-beta-lactamase superfamily protein (COG1237 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44454
PHATRDRAFT_44570

PHATRDRAFT_44570 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44570
PHATRDRAFT_45091

PHATRDRAFT_45091 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45091
PHATRDRAFT_45109

PHATRDRAFT_45109 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45109
PHATRDRAFT_45479

PHATRDRAFT_45479 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45479
PHATRDRAFT_46265

PHATRDRAFT_46265 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46265
PHATRDRAFT_46497

PHATRDRAFT_46497 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46497
PHATRDRAFT_47901

PHATRDRAFT_47901 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47901
PHATRDRAFT_49521 ctr1-like kinase kinase kinase (S_TKc)

PHATRDRAFT_49521 - ctr1-like kinase kinase kinase (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49521
PHATRDRAFT_8996 rac-beta serine threonine protein (STKc_AGC)

PHATRDRAFT_8996 - rac-beta serine threonine protein (STKc_AGC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8996
GO ID Go Term p-value q-value Cluster
GO:0006629 lipid metabolism 0.0350457 1 Phatr_bicluster_0114
GO:0006468 protein amino acid phosphorylation 0.0424353 1 Phatr_bicluster_0114
GO:0019538 protein metabolism 0.069012 1 Phatr_bicluster_0114
GO:0007242 intracellular signaling cascade 0.0800992 1 Phatr_bicluster_0114
GO:0007165 signal transduction 0.0892501 1 Phatr_bicluster_0114
GO:0016567 protein ubiquitination 0.13382 1 Phatr_bicluster_0114
GO:0006457 protein folding 0.209255 1 Phatr_bicluster_0114
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