Phatr_bicluster_0017 Residual: 0.46
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_0017 0.46 Phaeodactylum tricornutum
Displaying 1 - 38 of 38
PHATRDRAFT_1143 dnajdnaj protein (DnaJ-X)

PHATRDRAFT_1143 - dnajdnaj protein (DnaJ-X)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1143
PHATRDRAFT_14242 light harvesting complex protein (Chloroa_b-bind)

PHATRDRAFT_14242 - light harvesting complex protein (Chloroa_b-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14242
PHATRDRAFT_14760 alpha 2 frustulin

PHATRDRAFT_14760 - alpha 2 frustulin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14760
PHATRDRAFT_14898 cg7217-isoform b (PRX5_like)

PHATRDRAFT_14898 - cg7217-isoform b (PRX5_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14898
PHATRDRAFT_15310 deubiquitinating enzyme 2 (Peptidase_C19)

PHATRDRAFT_15310 - deubiquitinating enzyme 2 (Peptidase_C19)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15310
PHATRDRAFT_15422 guanine nucleotide exchange family protein (Sec7)

PHATRDRAFT_15422 - guanine nucleotide exchange family protein (Sec7)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15422
PHATRDRAFT_16343 ferritin family protein (Ferritin_like superfamily)

PHATRDRAFT_16343 - ferritin family protein (Ferritin_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16343
PHATRDRAFT_1875 calcium-dependent calmodulin-independent protein kinase cdpk (S_TKc)

PHATRDRAFT_1875 - calcium-dependent calmodulin-independent protein kinase cdpk (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1875
PHATRDRAFT_25856 endopeptidase clp atp-binding chain b (chaperone_ClpB)

PHATRDRAFT_25856 - endopeptidase clp atp-binding chain b (chaperone_ClpB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_25856
PHATRDRAFT_28652 lipoate synthase (PRK05481)

PHATRDRAFT_28652 - lipoate synthase (PRK05481)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28652
PHATRDRAFT_35370 carbonic anhydrase (alpha_CA superfamily)

PHATRDRAFT_35370 - carbonic anhydrase (alpha_CA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35370
PHATRDRAFT_37164 oxidase hydroxylase (PhyH superfamily)

PHATRDRAFT_37164 - oxidase hydroxylase (PhyH superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37164
PHATRDRAFT_37765

PHATRDRAFT_37765 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37765
PHATRDRAFT_39571

PHATRDRAFT_39571 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39571
PHATRDRAFT_42825

PHATRDRAFT_42825 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42825
PHATRDRAFT_43897 (Peptidase_M10_C)

PHATRDRAFT_43897 - (Peptidase_M10_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43897
PHATRDRAFT_45708

PHATRDRAFT_45708 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45708
PHATRDRAFT_46013 microneme antigen

PHATRDRAFT_46013 - microneme antigen

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46013
PHATRDRAFT_46607 cg3057-isoform a (Mito_carr)

PHATRDRAFT_46607 - cg3057-isoform a (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46607
PHATRDRAFT_47256 arr18 (arabidopsis response regulator 18) transcription factor two-component response regulator (SANT superfamily)

PHATRDRAFT_47256 - arr18 (arabidopsis response regulator 18) transcription factor two-component response regulator (SANT superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47256
PHATRDRAFT_47264 transcription factor e2f dimerisation partner familyexpressed (E2F_TDP)

PHATRDRAFT_47264 - transcription factor e2f dimerisation partner familyexpressed (E2F_TDP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47264
PHATRDRAFT_47612 (Phytase-like)

PHATRDRAFT_47612 - (Phytase-like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47612
PHATRDRAFT_47664

PHATRDRAFT_47664 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47664
PHATRDRAFT_47667 sodium-dependent phosphate transporter (2a58)

PHATRDRAFT_47667 - sodium-dependent phosphate transporter (2a58)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47667
PHATRDRAFT_48379

PHATRDRAFT_48379 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48379
PHATRDRAFT_48425 spondinextracellular matrix protein (Spond_N superfamily)

PHATRDRAFT_48425 - spondinextracellular matrix protein (Spond_N superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48425
PHATRDRAFT_48492 alkaline serine protease (Peptidases_S8_PCSK9_ProteinaseK_like)

PHATRDRAFT_48492 - alkaline serine protease (Peptidases_S8_PCSK9_ProteinaseK_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48492
PHATRDRAFT_48495 alkaline serine protease (Peptidases_S8_PCSK9_ProteinaseK_like)

PHATRDRAFT_48495 - alkaline serine protease (Peptidases_S8_PCSK9_ProteinaseK_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48495
PHATRDRAFT_48938

PHATRDRAFT_48938 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48938
PHATRDRAFT_49133 carbohydrate-binding protein

PHATRDRAFT_49133 - carbohydrate-binding protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49133
PHATRDRAFT_49265

PHATRDRAFT_49265 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49265
PHATRDRAFT_49579

PHATRDRAFT_49579 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49579
PHATRDRAFT_49907

PHATRDRAFT_49907 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49907
PHATRDRAFT_50021

PHATRDRAFT_50021 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50021
PHATRDRAFT_50252 aldo keto reductase family (Aldo_ket_red)

PHATRDRAFT_50252 - aldo keto reductase family (Aldo_ket_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50252
PHATRDRAFT_54150 heat shock protein hsp20 (ACD_sHsps_p23-like)

PHATRDRAFT_54150 - heat shock protein hsp20 (ACD_sHsps_p23-like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54150
PHATRDRAFT_54486 (NOX_Duox_like_FAD_NADP)

PHATRDRAFT_54486 - (NOX_Duox_like_FAD_NADP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54486
PHATRDRAFT_54998 pyruvate kinase (PLN02461)

PHATRDRAFT_54998 - pyruvate kinase (PLN02461)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54998
GO ID Go Term p-value q-value Cluster
GO:0043086 negative regulation of enzyme activity 0.00025385 0.582079 Phatr_bicluster_0017
GO:0006879 iron ion homeostasis 0.00518647 1 Phatr_bicluster_0017
GO:0006826 iron ion transport 0.00518647 1 Phatr_bicluster_0017
GO:0007275 development 0.0103473 1 Phatr_bicluster_0017
GO:0006633 fatty acid biosynthetic process 0.0103473 1 Phatr_bicluster_0017
GO:0009107 lipoate biosynthesis 0.0103473 1 Phatr_bicluster_0017
GO:0006730 one-carbon compound metabolism 0.0205926 1 Phatr_bicluster_0017
GO:0006817 phosphate transport 0.0357713 1 Phatr_bicluster_0017
GO:0007155 cell adhesion 0.0654593 1 Phatr_bicluster_0017
GO:0000074 regulation of cell cycle 0.16266 1 Phatr_bicluster_0017
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