Phatr_bicluster_0257 Residual: 0.37
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_0257 0.37 Phaeodactylum tricornutum
Displaying 1 - 33 of 33
PHATRDRAFT_11793 flagellin-sensing 2-like protein (PLN00113)

PHATRDRAFT_11793 - flagellin-sensing 2-like protein (PLN00113)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11793
PHATRDRAFT_16940 flag-tagged protein kinase domain ofmitogen-activated protein kinase kinase kinase (PKc_like superfamily)

PHATRDRAFT_16940 - flag-tagged protein kinase domain ofmitogen-activated protein kinase kinase kinase (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16940
PHATRDRAFT_35042

PHATRDRAFT_35042 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35042
PHATRDRAFT_36443

PHATRDRAFT_36443 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36443
PHATRDRAFT_36586

PHATRDRAFT_36586 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36586
PHATRDRAFT_36794 helicase domain protein (HA)

PHATRDRAFT_36794 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36794
PHATRDRAFT_37891

PHATRDRAFT_37891 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37891
PHATRDRAFT_39238 4930451c15rik protein (LRR_RI superfamily)

PHATRDRAFT_39238 - 4930451c15rik protein (LRR_RI superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39238
PHATRDRAFT_39660

PHATRDRAFT_39660 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39660
PHATRDRAFT_40534

PHATRDRAFT_40534 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40534
PHATRDRAFT_40539

PHATRDRAFT_40539 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40539
PHATRDRAFT_41358

PHATRDRAFT_41358 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41358
PHATRDRAFT_41562 (DUF285)

PHATRDRAFT_41562 - (DUF285)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41562
PHATRDRAFT_41650

PHATRDRAFT_41650 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41650
PHATRDRAFT_42423 cca14_orysjcyclin-a1-4 (g2 mitotic-specific cyclin-a1-4)

PHATRDRAFT_42423 - cca14_orysjcyclin-a1-4 (g2 mitotic-specific cyclin-a1-4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42423
PHATRDRAFT_42647 (cyclophilin superfamily)

PHATRDRAFT_42647 - (cyclophilin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42647
PHATRDRAFT_44523

PHATRDRAFT_44523 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44523
PHATRDRAFT_44524 (PH-like superfamily)

PHATRDRAFT_44524 - (PH-like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44524
PHATRDRAFT_44583

PHATRDRAFT_44583 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44583
PHATRDRAFT_45280 rna chaperone hfq

PHATRDRAFT_45280 - rna chaperone hfq

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45280
PHATRDRAFT_45637

PHATRDRAFT_45637 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45637
PHATRDRAFT_46345

PHATRDRAFT_46345 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46345
PHATRDRAFT_46346 two component regulator three y domain protein

PHATRDRAFT_46346 - two component regulator three y domain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46346
PHATRDRAFT_46519

PHATRDRAFT_46519 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46519
PHATRDRAFT_46528

PHATRDRAFT_46528 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46528
PHATRDRAFT_46573 tpr repeat (TPR_12)

PHATRDRAFT_46573 - tpr repeat (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46573
PHATRDRAFT_46717

PHATRDRAFT_46717 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46717
PHATRDRAFT_47709 guanylyl cyclase family member (gcy-28) (CHD)

PHATRDRAFT_47709 - guanylyl cyclase family member (gcy-28) (CHD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47709
PHATRDRAFT_47725 tropomodulin 1 (LRR_RI superfamily)

PHATRDRAFT_47725 - tropomodulin 1 (LRR_RI superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47725
PHATRDRAFT_50184

PHATRDRAFT_50184 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50184
PHATRDRAFT_51953 mca1_yeastmetacaspase-1 precursor (Peptidase_C14)

PHATRDRAFT_51953 - mca1_yeastmetacaspase-1 precursor (Peptidase_C14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51953
PHATRDRAFT_54760 protein kinase domain containing protein (Pkinase)

PHATRDRAFT_54760 - protein kinase domain containing protein (Pkinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54760
PHATRDRAFT_8877 protein kinase 6-like (PKc_like superfamily)

PHATRDRAFT_8877 - protein kinase 6-like (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8877
GO ID Go Term p-value q-value Cluster
GO:0009190 cyclic nucleotide biosynthesis 0.0331273 1 Phatr_bicluster_0257
GO:0006468 protein amino acid phosphorylation 0.0424353 1 Phatr_bicluster_0257
GO:0000074 regulation of cell cycle 0.0652904 1 Phatr_bicluster_0257
GO:0007242 intracellular signaling cascade 0.0800992 1 Phatr_bicluster_0257
GO:0007165 signal transduction 0.0892501 1 Phatr_bicluster_0257
GO:0006508 proteolysis and peptidolysis 0.365994 1 Phatr_bicluster_0257
GO:0008152 metabolism 0.453158 1 Phatr_bicluster_0257
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