Phatr_bicluster_0033 Residual: 0.42
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_0033 0.42 Phaeodactylum tricornutum
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Displaying 1 - 33 of 33
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PHATRDRAFT_11198 central motor kinesin 1 (KISc_KIF2_like)

PHATRDRAFT_11198 - central motor kinesin 1 (KISc_KIF2_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11198
PHATRDRAFT_11608 spermidine synthase (AdoMet_MTases superfamily)

PHATRDRAFT_11608 - spermidine synthase (AdoMet_MTases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11608
PHATRDRAFT_16243 arystal structure ofpaa protein fromortheast structural genomics target ber40 (DUF525 superfamily)

PHATRDRAFT_16243 - arystal structure ofpaa protein fromortheast structural genomics target ber40 (DUF525 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16243
PHATRDRAFT_27447 novel proteinvertebrate copine iv (vWFA superfamily)

PHATRDRAFT_27447 - novel proteinvertebrate copine iv (vWFA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_27447
PHATRDRAFT_31619 frne protein (DsbA_FrnE)

PHATRDRAFT_31619 - frne protein (DsbA_FrnE)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31619
PHATRDRAFT_35702 ac087852_26protein kinase (Pkinase)

PHATRDRAFT_35702 - ac087852_26protein kinase (Pkinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35702
PHATRDRAFT_35784

PHATRDRAFT_35784 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35784
PHATRDRAFT_36014 protein involved in catabolism of external dna (AdoMet_MTases superfamily)

PHATRDRAFT_36014 - protein involved in catabolism of external dna (AdoMet_MTases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36014
PHATRDRAFT_37868

PHATRDRAFT_37868 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37868
PHATRDRAFT_42600

PHATRDRAFT_42600 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42600
PHATRDRAFT_43724 ac079179_9protein kinase

PHATRDRAFT_43724 - ac079179_9protein kinase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43724
PHATRDRAFT_44041 universal minicircle sequence binding protein

PHATRDRAFT_44041 - universal minicircle sequence binding protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44041
PHATRDRAFT_45118 amidase-like protein (GGCT_like superfamily)

PHATRDRAFT_45118 - amidase-like protein (GGCT_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45118
PHATRDRAFT_45473 protein c20orf4 homolog (Aar2_C)

PHATRDRAFT_45473 - protein c20orf4 homolog (Aar2_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45473
PHATRDRAFT_45917 cog3781: membrane protein (Bestrophin superfamily)

PHATRDRAFT_45917 - cog3781: membrane protein (Bestrophin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45917
PHATRDRAFT_46779

PHATRDRAFT_46779 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46779
PHATRDRAFT_47182 (Trs65)

PHATRDRAFT_47182 - (Trs65)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47182
PHATRDRAFT_47607

PHATRDRAFT_47607 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47607
PHATRDRAFT_47657

PHATRDRAFT_47657 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47657
PHATRDRAFT_47826 npap (nuclear polypolymerase) nucleotidyltransferase (PTZ00418)

PHATRDRAFT_47826 - npap (nuclear polypolymerase) nucleotidyltransferase (PTZ00418)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47826
PHATRDRAFT_47934 hsf protein

PHATRDRAFT_47934 - hsf protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47934
PHATRDRAFT_47994

PHATRDRAFT_47994 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47994
PHATRDRAFT_48004

PHATRDRAFT_48004 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48004
PHATRDRAFT_48014

PHATRDRAFT_48014 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48014
PHATRDRAFT_48446 lysosomal acid phosphatase 2 (HP_HAP_like)

PHATRDRAFT_48446 - lysosomal acid phosphatase 2 (HP_HAP_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48446
PHATRDRAFT_48523 phosphatidate cytidylyltransferase family protein

PHATRDRAFT_48523 - phosphatidate cytidylyltransferase family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48523
PHATRDRAFT_48898

PHATRDRAFT_48898 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48898
PHATRDRAFT_48959 (Sec10 superfamily)

PHATRDRAFT_48959 - (Sec10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48959
PHATRDRAFT_49084 integrin-linked kinase (ANK)

PHATRDRAFT_49084 - integrin-linked kinase (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49084
PHATRDRAFT_49128

PHATRDRAFT_49128 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49128
PHATRDRAFT_49316 dipeptidyl-peptidase 7 (Peptidase_S28 superfamily)

PHATRDRAFT_49316 - dipeptidyl-peptidase 7 (Peptidase_S28 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49316
PHATRDRAFT_49352 (ATG_C superfamily)

PHATRDRAFT_49352 - (ATG_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49352
PHATRDRAFT_51519 lipoate-protein ligase b (BPL_LplA_LipB superfamily)

PHATRDRAFT_51519 - lipoate-protein ligase b (BPL_LplA_LipB superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51519
GO ID Go Term p-value q-value Cluster
GO:0006306 DNA methylation 0.0340932 1 Phatr_bicluster_0033
GO:0006350 transcription 0.0357713 1 Phatr_bicluster_0033
GO:0007018 microtubule-based movement 0.0507627 1 Phatr_bicluster_0033
GO:0006508 proteolysis and peptidolysis 0.053216 1 Phatr_bicluster_0033
GO:0006468 protein amino acid phosphorylation 0.262204 1 Phatr_bicluster_0033
GO:0008152 metabolism 0.410263 1 Phatr_bicluster_0033
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