Phatr_bicluster_0136 Residual: 0.58
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_0136 0.58 Phaeodactylum tricornutum
Displaying 1 - 35 of 35
PHATRDRAFT_18481 isoamyl acetate-hydrolyzing esterase 1 homolog (Isoamyl_acetate_hydrolase_like)

PHATRDRAFT_18481 - isoamyl acetate-hydrolyzing esterase 1 homolog (Isoamyl_acetate_hydrolase_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18481
PHATRDRAFT_33111

PHATRDRAFT_33111 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33111
PHATRDRAFT_33400 (dsDNA_bind superfamily)

PHATRDRAFT_33400 - (dsDNA_bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33400
PHATRDRAFT_33402

PHATRDRAFT_33402 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33402
PHATRDRAFT_37456

PHATRDRAFT_37456 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37456
PHATRDRAFT_37463

PHATRDRAFT_37463 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37463
PHATRDRAFT_38108 receptor protein kinase (PLN00113)

PHATRDRAFT_38108 - receptor protein kinase (PLN00113)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38108
PHATRDRAFT_38777

PHATRDRAFT_38777 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38777
PHATRDRAFT_39243

PHATRDRAFT_39243 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39243
PHATRDRAFT_39572

PHATRDRAFT_39572 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39572
PHATRDRAFT_39914 homocysteine methyltransferase (S-methyl_trans superfamily)

PHATRDRAFT_39914 - homocysteine methyltransferase (S-methyl_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39914
PHATRDRAFT_40462 (Tryp_SPc)

PHATRDRAFT_40462 - (Tryp_SPc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40462
PHATRDRAFT_40785 core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

PHATRDRAFT_40785 - core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40785
PHATRDRAFT_40786

PHATRDRAFT_40786 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40786
PHATRDRAFT_43801

PHATRDRAFT_43801 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43801
PHATRDRAFT_44188 protein kinase domain containing protein (Methyltransf_31)

PHATRDRAFT_44188 - protein kinase domain containing protein (Methyltransf_31)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44188
PHATRDRAFT_4423 histone deactylase of possible bacterial origin with ankyrin repeats at the n-terminus (HDAC_classII_2)

PHATRDRAFT_4423 - histone deactylase of possible bacterial origin with ankyrin repeats at the n-terminus (HDAC_classII_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4423
PHATRDRAFT_47349

PHATRDRAFT_47349 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47349
PHATRDRAFT_47502

PHATRDRAFT_47502 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47502
PHATRDRAFT_47565 amp-dependent synthetase and ligase (AFD_class_I superfamily)

PHATRDRAFT_47565 - amp-dependent synthetase and ligase (AFD_class_I superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47565
PHATRDRAFT_47751

PHATRDRAFT_47751 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47751
PHATRDRAFT_47938

PHATRDRAFT_47938 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47938
PHATRDRAFT_48368

PHATRDRAFT_48368 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48368
PHATRDRAFT_49085

PHATRDRAFT_49085 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49085
PHATRDRAFT_49107 lipopolysaccharide a protein (CAP10 superfamily)

PHATRDRAFT_49107 - lipopolysaccharide a protein (CAP10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49107
PHATRDRAFT_49188

PHATRDRAFT_49188 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49188
PHATRDRAFT_49300

PHATRDRAFT_49300 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49300
PHATRDRAFT_49511 (TPD superfamily)

PHATRDRAFT_49511 - (TPD superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49511
PHATRDRAFT_49745 helicase domain protein (HA)

PHATRDRAFT_49745 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49745
PHATRDRAFT_50090

PHATRDRAFT_50090 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50090
PHATRDRAFT_50357 probable cell surface glycoprotein

PHATRDRAFT_50357 - probable cell surface glycoprotein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50357
PHATRDRAFT_54466

PHATRDRAFT_54466 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54466
PHATRDRAFT_54708

PHATRDRAFT_54708 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54708
PHATRDRAFT_55010

PHATRDRAFT_55010 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55010
PHATRDRAFT_9609 lipophosphoglycan biosynthetic protein (VRG4)

PHATRDRAFT_9609 - lipophosphoglycan biosynthetic protein (VRG4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9609
GO ID Go Term p-value q-value Cluster
GO:0006508 proteolysis and peptidolysis 0.00880858 1 Phatr_bicluster_0136
GO:0005975 carbohydrate metabolism 0.0459669 1 Phatr_bicluster_0136
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