Phatr_bicluster_0058 Residual: 0.36
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_0058 0.36 Phaeodactylum tricornutum
Displaying 1 - 46 of 46
PHATRDRAFT_12788 mitochondrial carrier protein (Mito_carr)

PHATRDRAFT_12788 - mitochondrial carrier protein (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12788
PHATRDRAFT_14002 glycosyl transferase family 1 protein (PLN02275)

PHATRDRAFT_14002 - glycosyl transferase family 1 protein (PLN02275)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14002
PHATRDRAFT_14937 carbon dioxide concentrating mechanism protein (TIGR00275)

PHATRDRAFT_14937 - carbon dioxide concentrating mechanism protein (TIGR00275)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14937
PHATRDRAFT_15801 (DUF1349 superfamily)

PHATRDRAFT_15801 - (DUF1349 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15801
PHATRDRAFT_15935 (NAD_binding_8 superfamily)

PHATRDRAFT_15935 - (NAD_binding_8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15935
PHATRDRAFT_23830 phosphate-repressible phosphate permease-like protein (PHO4)

PHATRDRAFT_23830 - phosphate-repressible phosphate permease-like protein (PHO4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23830
PHATRDRAFT_31339 (p450 superfamily)

PHATRDRAFT_31339 - (p450 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31339
PHATRDRAFT_37525 mbp-1 interacting protein-2a (Sedlin_N superfamily)

PHATRDRAFT_37525 - mbp-1 interacting protein-2a (Sedlin_N superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37525
PHATRDRAFT_38048

PHATRDRAFT_38048 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38048
PHATRDRAFT_38511

PHATRDRAFT_38511 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38511
PHATRDRAFT_38899 sulfate transporter

PHATRDRAFT_38899 - sulfate transporter

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38899
PHATRDRAFT_38916

PHATRDRAFT_38916 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38916
PHATRDRAFT_39214

PHATRDRAFT_39214 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39214
PHATRDRAFT_40063 seed maturation proteinexpressed (DUF4149)

PHATRDRAFT_40063 - seed maturation proteinexpressed (DUF4149)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40063
PHATRDRAFT_41008

PHATRDRAFT_41008 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41008
PHATRDRAFT_41026

PHATRDRAFT_41026 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41026
PHATRDRAFT_41265 tructure of aminoadipate-semialdehyde dehydrogenase- phosphopantetheinyl transferase (ACPS)

PHATRDRAFT_41265 - tructure of aminoadipate-semialdehyde dehydrogenase- phosphopantetheinyl transferase (ACPS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41265
PHATRDRAFT_44003 aspartoacylase (PRK02259 superfamily)

PHATRDRAFT_44003 - aspartoacylase (PRK02259 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44003
PHATRDRAFT_44492 amino-acid n-acetyltransferase (AAK superfamily)

PHATRDRAFT_44492 - amino-acid n-acetyltransferase (AAK superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44492
PHATRDRAFT_46309

PHATRDRAFT_46309 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46309
PHATRDRAFT_46767

PHATRDRAFT_46767 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46767
PHATRDRAFT_46926 aaa+-type atpase (DUF1995 superfamily)

PHATRDRAFT_46926 - aaa+-type atpase (DUF1995 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46926
PHATRDRAFT_47453

PHATRDRAFT_47453 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47453
PHATRDRAFT_47706 protein phosphatase 4 (formerly x)catalytic subunit (Arv1 superfamily)

PHATRDRAFT_47706 - protein phosphatase 4 (formerly x)catalytic subunit (Arv1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47706
PHATRDRAFT_47860

PHATRDRAFT_47860 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47860
PHATRDRAFT_47941

PHATRDRAFT_47941 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47941
PHATRDRAFT_47970 peptidyl-prolyl cis-transfkbp-type (FKBP_C)

PHATRDRAFT_47970 - peptidyl-prolyl cis-transfkbp-type (FKBP_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47970
PHATRDRAFT_48016

PHATRDRAFT_48016 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48016
PHATRDRAFT_48135 (PHD)

PHATRDRAFT_48135 - (PHD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48135
PHATRDRAFT_48282 (E_set_GO_C)

PHATRDRAFT_48282 - (E_set_GO_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48282
PHATRDRAFT_48355

PHATRDRAFT_48355 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48355
PHATRDRAFT_48789

PHATRDRAFT_48789 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48789
PHATRDRAFT_48824

PHATRDRAFT_48824 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48824
PHATRDRAFT_49140

PHATRDRAFT_49140 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49140
PHATRDRAFT_49223 periplasmic serine protease do (htra-1) (degP_htrA_DO)

PHATRDRAFT_49223 - periplasmic serine protease do (htra-1) (degP_htrA_DO)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49223
PHATRDRAFT_49415 cobalamin synthesisp47k (COG0523)

PHATRDRAFT_49415 - cobalamin synthesisp47k (COG0523)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49415
PHATRDRAFT_49428

PHATRDRAFT_49428 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49428
PHATRDRAFT_49588

PHATRDRAFT_49588 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49588
PHATRDRAFT_49667

PHATRDRAFT_49667 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49667
PHATRDRAFT_49836 gpi transamidase component gpi16 subunit family protein (Gpi16 superfamily)

PHATRDRAFT_49836 - gpi transamidase component gpi16 subunit family protein (Gpi16 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49836
PHATRDRAFT_49977

PHATRDRAFT_49977 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49977
PHATRDRAFT_50107

PHATRDRAFT_50107 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50107
PHATRDRAFT_50149 cg3747-isoform a (SDF)

PHATRDRAFT_50149 - cg3747-isoform a (SDF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50149
PHATRDRAFT_50462

PHATRDRAFT_50462 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50462
PHATRDRAFT_50610

PHATRDRAFT_50610 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50610
PHATRDRAFT_7195 zinc-binding hydrolase (nucleoside_deaminase)

PHATRDRAFT_7195 - zinc-binding hydrolase (nucleoside_deaminase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_7195
GO ID Go Term p-value q-value Cluster
GO:0006835 dicarboxylic acid transport 0.00641182 1 Phatr_bicluster_0058
GO:0006817 phosphate transport 0.0222757 1 Phatr_bicluster_0058
GO:0006633 fatty acid biosynthesis 0.0410037 1 Phatr_bicluster_0058
GO:0006810 transport 0.1228 1 Phatr_bicluster_0058
GO:0006508 proteolysis and peptidolysis 0.159337 1 Phatr_bicluster_0058
GO:0006118 electron transport 0.165064 1 Phatr_bicluster_0058
GO:0008152 metabolism 0.242573 1 Phatr_bicluster_0058
GO:0006457 protein folding 0.317339 1 Phatr_bicluster_0058
GO:0006355 regulation of transcription, DNA-dependent 0.515177 1 Phatr_bicluster_0058
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