Phatr_bicluster_0151 Residual: 0.34
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_0151 0.34 Phaeodactylum tricornutum
Displaying 1 - 24 of 24
PHATRDRAFT_31778 m23 27 family protein (Peptidase_M23)

PHATRDRAFT_31778 - m23 27 family protein (Peptidase_M23)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31778
PHATRDRAFT_33436

PHATRDRAFT_33436 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33436
PHATRDRAFT_36001 ac027656_21cg10338 gene product from drosophila melanogaster gb (DUF647)

PHATRDRAFT_36001 - ac027656_21cg10338 gene product from drosophila melanogaster gb (DUF647)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36001
PHATRDRAFT_36578

PHATRDRAFT_36578 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36578
PHATRDRAFT_36843

PHATRDRAFT_36843 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36843
PHATRDRAFT_37793 pirin domain protein domain protein (Pirin superfamily)

PHATRDRAFT_37793 - pirin domain protein domain protein (Pirin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37793
PHATRDRAFT_42542 gaba-a receptor-associated membrane protein 3 (zf-DHHC superfamily)

PHATRDRAFT_42542 - gaba-a receptor-associated membrane protein 3 (zf-DHHC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42542
PHATRDRAFT_43764 short-chain dehydrogenase reductase sdr (NADB_Rossmann superfamily)

PHATRDRAFT_43764 - short-chain dehydrogenase reductase sdr (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43764
PHATRDRAFT_43771

PHATRDRAFT_43771 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43771
PHATRDRAFT_43961 transmembrane protein 53isoform cra_b (DUF829 superfamily)

PHATRDRAFT_43961 - transmembrane protein 53isoform cra_b (DUF829 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43961
PHATRDRAFT_44077 nad-dependent epimerase dehydratase family (NADB_Rossmann superfamily)

PHATRDRAFT_44077 - nad-dependent epimerase dehydratase family (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44077
PHATRDRAFT_44200 heat shock transcription factor hsf5 (HSF_DNA-bind)

PHATRDRAFT_44200 - heat shock transcription factor hsf5 (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44200
PHATRDRAFT_44201

PHATRDRAFT_44201 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44201
PHATRDRAFT_44962

PHATRDRAFT_44962 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44962
PHATRDRAFT_45053

PHATRDRAFT_45053 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45053
PHATRDRAFT_45746

PHATRDRAFT_45746 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45746
PHATRDRAFT_46488

PHATRDRAFT_46488 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46488
PHATRDRAFT_46547 chu large protein uncharacterized

PHATRDRAFT_46547 - chu large protein uncharacterized

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46547
PHATRDRAFT_47653

PHATRDRAFT_47279 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47279
PHATRDRAFT_48751 (SLC5-6-like_sbd superfamily)

PHATRDRAFT_47653 - (SLC5-6-like_sbd superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47653
PHATRDRAFT_48790 cyclopropane-fatty-acyl-phospholipid synthase (Methyltransf_31)

PHATRDRAFT_48751 - cyclopropane-fatty-acyl-phospholipid synthase (Methyltransf_31)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48751
PHATRDRAFT_49414 (LCM superfamily)

PHATRDRAFT_48790 - (LCM superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48790
PHATRDRAFT_50486

PHATRDRAFT_49414 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49414

PHATRDRAFT_50486 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50486
GO ID Go Term p-value q-value Cluster
GO:0006836 neurotransmitter transport 0.00345508 1 Phatr_bicluster_0151
GO:0006355 regulation of transcription, DNA-dependent 0.0510752 1 Phatr_bicluster_0151
GO:0007165 signal transduction 0.0785354 1 Phatr_bicluster_0151
GO:0006468 protein amino acid phosphorylation 0.262204 1 Phatr_bicluster_0151
GO:0006508 proteolysis and peptidolysis 0.328797 1 Phatr_bicluster_0151
GO:0008152 metabolism 0.410263 1 Phatr_bicluster_0151
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