Phatr_bicluster_0243 Residual: 0.22
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_0243 0.22 Phaeodactylum tricornutum
Displaying 1 - 21 of 21
PHATRDRAFT_11690 (metallo-dependent_hydrolases superfamily)

PHATRDRAFT_11690 - (metallo-dependent_hydrolases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11690
PHATRDRAFT_11710 separation anxiety (RimI)

PHATRDRAFT_11710 - separation anxiety (RimI)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11710
PHATRDRAFT_13322 had superfamily protein involved in n-acetyl-glucosamine catabolism-like (HAD-SF-IIA-hyp4)

PHATRDRAFT_13322 - had superfamily protein involved in n-acetyl-glucosamine catabolism-like (HAD-SF-IIA-hyp4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13322
PHATRDRAFT_18199 dead box rna (DEADc)

PHATRDRAFT_18199 - dead box rna (DEADc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18199
PHATRDRAFT_33046 codanin 1

PHATRDRAFT_33046 - codanin 1

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33046
PHATRDRAFT_33598

PHATRDRAFT_33598 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33598
PHATRDRAFT_33767

PHATRDRAFT_33767 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33767
PHATRDRAFT_34014 cf211_brare upf0364 protein c6orf211 homolog (DUF89)

PHATRDRAFT_34014 - cf211_brare upf0364 protein c6orf211 homolog (DUF89)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34014
PHATRDRAFT_34516

PHATRDRAFT_34516 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34516
PHATRDRAFT_35461

PHATRDRAFT_35461 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35461
PHATRDRAFT_36026

PHATRDRAFT_36026 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36026
PHATRDRAFT_42474 mitochondrial ornithine carrierprotein (Mito_carr)

PHATRDRAFT_42474 - mitochondrial ornithine carrierprotein (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42474
PHATRDRAFT_42498 clumping factor b

PHATRDRAFT_42498 - clumping factor b

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42498
PHATRDRAFT_42762 kinesin light chain (TPR)

PHATRDRAFT_42762 - kinesin light chain (TPR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42762
PHATRDRAFT_44652 (DUF4243)

PHATRDRAFT_44652 - (DUF4243)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44652
PHATRDRAFT_45221 transmembrane protein (MS_channel superfamily)

PHATRDRAFT_45221 - transmembrane protein (MS_channel superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45221
PHATRDRAFT_45798

PHATRDRAFT_45798 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45798
PHATRDRAFT_46827

PHATRDRAFT_46827 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46827
PHATRDRAFT_47047

PHATRDRAFT_47047 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47047
PHATRDRAFT_8828 helicase domain protein (HA)

PHATRDRAFT_6725 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6725

PHATRDRAFT_8828 - pyridoxal kinase-like protein (pyridoxal_pyridoxamine_kinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8828
GO ID Go Term p-value q-value Cluster
GO:0006810 transport 0.0921302 1 Phatr_bicluster_0243
GO:0008152 metabolism 0.139965 1 Phatr_bicluster_0243
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