Phatr_bicluster_0110 Residual: 0.50
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_0110 0.50 Phaeodactylum tricornutum
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Displaying 1 - 47 of 47
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PHATRDRAFT_10454 palmitoyl-protein thioesterase 1 (Palm_thioest superfamily)

PHATRDRAFT_10454 - palmitoyl-protein thioesterase 1 (Palm_thioest superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10454
PHATRDRAFT_10948 histidine kinase (REC)

PHATRDRAFT_10948 - histidine kinase (REC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10948
PHATRDRAFT_1196 disease resistance protein

PHATRDRAFT_1196 - disease resistance protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1196
PHATRDRAFT_12456 alpha 2 frustulin

PHATRDRAFT_12456 - alpha 2 frustulin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12456
PHATRDRAFT_14373 (COG2363)

PHATRDRAFT_14373 - (COG2363)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14373
PHATRDRAFT_14787 (Ras_like_GTPase superfamily)

PHATRDRAFT_14787 - (Ras_like_GTPase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14787
PHATRDRAFT_16063 helicase domain protein (HA)

PHATRDRAFT_16063 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16063
PHATRDRAFT_1946

PHATRDRAFT_1946 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1946
PHATRDRAFT_23694 protein kinase domain containing protein (S_TKc)

PHATRDRAFT_23694 - protein kinase domain containing protein (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23694
PHATRDRAFT_29381 phytanoyl-dioxygenase domain containing 1 (PhyH)

PHATRDRAFT_29381 - phytanoyl-dioxygenase domain containing 1 (PhyH)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_29381
PHATRDRAFT_35855

PHATRDRAFT_35855 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35855
PHATRDRAFT_37978

PHATRDRAFT_37978 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37978
PHATRDRAFT_38018

PHATRDRAFT_38018 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38018
PHATRDRAFT_38755 2-nitropropane dioxygenase family (NPD_like)

PHATRDRAFT_38755 - 2-nitropropane dioxygenase family (NPD_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38755
PHATRDRAFT_38884 probable dioxygenase (Glo_EDI_BRP_like_18)

PHATRDRAFT_38884 - probable dioxygenase (Glo_EDI_BRP_like_18)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38884
PHATRDRAFT_39877

PHATRDRAFT_39877 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39877
PHATRDRAFT_40154 ubiquitin specific peptidasex-isoform 1 (Peptidase_C19 superfamily)

PHATRDRAFT_40154 - ubiquitin specific peptidasex-isoform 1 (Peptidase_C19 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40154
PHATRDRAFT_40658

PHATRDRAFT_40658 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40658
PHATRDRAFT_43279

PHATRDRAFT_43279 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43279
PHATRDRAFT_43886 harpin binding protein 1 (PAP_fibrillin superfamily)

PHATRDRAFT_43886 - harpin binding protein 1 (PAP_fibrillin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43886
PHATRDRAFT_45142

PHATRDRAFT_45142 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45142
PHATRDRAFT_45275

PHATRDRAFT_45275 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45275
PHATRDRAFT_45288

PHATRDRAFT_45288 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45288
PHATRDRAFT_45315

PHATRDRAFT_45315 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45315
PHATRDRAFT_45819

PHATRDRAFT_45819 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45819
PHATRDRAFT_46118

PHATRDRAFT_46118 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46118
PHATRDRAFT_46151 nucleic acid bindingrelated (DUF2431 superfamily)

PHATRDRAFT_46151 - nucleic acid bindingrelated (DUF2431 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46151
PHATRDRAFT_46231 tetratricopeptide repeat domain protein (TPR)

PHATRDRAFT_46231 - tetratricopeptide repeat domain protein (TPR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46231
PHATRDRAFT_47325

PHATRDRAFT_47325 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47325
PHATRDRAFT_47591

PHATRDRAFT_47591 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47591
PHATRDRAFT_47903 c2 domain-containing protein (C2)

PHATRDRAFT_47903 - c2 domain-containing protein (C2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47903
PHATRDRAFT_48175 phytochelatin synthase (Phytochelatin superfamily)

PHATRDRAFT_48175 - phytochelatin synthase (Phytochelatin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48175
PHATRDRAFT_48332

PHATRDRAFT_48332 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48332
PHATRDRAFT_48506

PHATRDRAFT_48506 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48506
PHATRDRAFT_48566

PHATRDRAFT_48566 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48566
PHATRDRAFT_48777 peptidyl-prolyl cis-transcyclophilin type (cyclophilin superfamily)

PHATRDRAFT_48777 - peptidyl-prolyl cis-transcyclophilin type (cyclophilin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48777
PHATRDRAFT_48933

PHATRDRAFT_48933 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48933
PHATRDRAFT_48934 (Bestrophin superfamily)

PHATRDRAFT_48934 - (Bestrophin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48934
PHATRDRAFT_49181 isoform cra_b

PHATRDRAFT_49181 - isoform cra_b

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49181
PHATRDRAFT_49457

PHATRDRAFT_49457 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49457
PHATRDRAFT_49537

PHATRDRAFT_49537 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49537
PHATRDRAFT_50155 glycosyl hydrolase family (GH18_chitinase-like superfamily)

PHATRDRAFT_50155 - glycosyl hydrolase family (GH18_chitinase-like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50155
PHATRDRAFT_50193

PHATRDRAFT_50193 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50193
PHATRDRAFT_50273 (Vma12 superfamily)

PHATRDRAFT_50273 - (Vma12 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50273
PHATRDRAFT_50437 c2 domain containing protein (C2)

PHATRDRAFT_50437 - c2 domain containing protein (C2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50437
PHATRDRAFT_8815 derl2_caeel derlin-2 (der1-like protein 2) (cderlin-2) (DER1 superfamily)

PHATRDRAFT_6076 - derl2_caeel derlin-2 (der1-like protein 2) (cderlin-2) (DER1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6076

PHATRDRAFT_8815 - skp1 family protein (Skp1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8815
GO ID Go Term p-value q-value Cluster
GO:0006030 chitin metabolism 0.00271672 1 Phatr_bicluster_0110
GO:0000160 two-component signal transduction system (phosphorelay) 0.0684919 1 Phatr_bicluster_0110
GO:0006865 amino acid transport 0.0735796 1 Phatr_bicluster_0110
GO:0006511 ubiquitin-dependent protein catabolism 0.115816 1 Phatr_bicluster_0110
GO:0005975 carbohydrate metabolism 0.158622 1 Phatr_bicluster_0110
GO:0006464 protein modification 0.158622 1 Phatr_bicluster_0110
GO:0006457 protein folding 0.275986 1 Phatr_bicluster_0110
GO:0006468 protein amino acid phosphorylation 0.380037 1 Phatr_bicluster_0110
GO:0006355 regulation of transcription, DNA-dependent 0.45797 1 Phatr_bicluster_0110
GO:0006118 electron transport 0.473356 1 Phatr_bicluster_0110
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