Phatr_bicluster_0035 Residual: 0.39
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_0035 0.39 Phaeodactylum tricornutum
Displaying 1 - 43 of 43
PHATRDRAFT_1372 exg_blugrglucan-beta-glucosidase precursor (exo--beta-glucanase) (BglC)

PHATRDRAFT_1372 - exg_blugrglucan-beta-glucosidase precursor (exo--beta-glucanase) (BglC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1372
PHATRDRAFT_17555 mitochondrial carrier protein (Mito_carr)

PHATRDRAFT_17555 - mitochondrial carrier protein (Mito_carr)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_17555
PHATRDRAFT_18096 dnaj domain (DnaJ)

PHATRDRAFT_18096 - dnaj domain (DnaJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18096
PHATRDRAFT_21660 (PIKKc_TOR)

PHATRDRAFT_21660 - (PIKKc_TOR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21660
PHATRDRAFT_34741 thioredoxin family protein (Thioredoxin_like superfamily)

PHATRDRAFT_34741 - thioredoxin family protein (Thioredoxin_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34741
PHATRDRAFT_40716

PHATRDRAFT_40716 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40716
PHATRDRAFT_40891 muc17 protein (PHA03247)

PHATRDRAFT_40891 - muc17 protein (PHA03247)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40891
PHATRDRAFT_42794 tesmin tso1-like cxc domain containing protein (TCR)

PHATRDRAFT_42794 - tesmin tso1-like cxc domain containing protein (TCR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42794
PHATRDRAFT_43117

PHATRDRAFT_43117 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43117
PHATRDRAFT_43132 (RING)

PHATRDRAFT_43132 - (RING)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43132
PHATRDRAFT_43207

PHATRDRAFT_43207 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43207
PHATRDRAFT_43291 adaptor protein kanadaptin (FHA)

PHATRDRAFT_43291 - adaptor protein kanadaptin (FHA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43291
PHATRDRAFT_43348

PHATRDRAFT_43348 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43348
PHATRDRAFT_43493 (Dynactin_p62 superfamily)

PHATRDRAFT_43493 - (Dynactin_p62 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43493
PHATRDRAFT_43819

PHATRDRAFT_43819 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43819
PHATRDRAFT_43944 nadh dehydrogenase (PLN03132)

PHATRDRAFT_43944 - nadh dehydrogenase (PLN03132)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43944
PHATRDRAFT_43983

PHATRDRAFT_43983 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43983
PHATRDRAFT_44065

PHATRDRAFT_44065 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44065
PHATRDRAFT_44181 (FHA)

PHATRDRAFT_44181 - (FHA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44181
PHATRDRAFT_44334 pseudouridine synthase family protein (PseudoU_synth_RluCD_like)

PHATRDRAFT_44334 - pseudouridine synthase family protein (PseudoU_synth_RluCD_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44334
PHATRDRAFT_44390 (SnoaL_2)

PHATRDRAFT_44390 - (SnoaL_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44390
PHATRDRAFT_44680

PHATRDRAFT_44680 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44680
PHATRDRAFT_44700 jun protein (BRLZ)

PHATRDRAFT_44700 - jun protein (BRLZ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44700
PHATRDRAFT_45033 early transcribed membrane protein

PHATRDRAFT_45033 - early transcribed membrane protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45033
PHATRDRAFT_45096 (EEP superfamily)

PHATRDRAFT_45096 - (EEP superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45096
PHATRDRAFT_45293 (SET)

PHATRDRAFT_45293 - (SET)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45293
PHATRDRAFT_45435 ppr protein (PPR_2)

PHATRDRAFT_45435 - ppr protein (PPR_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45435
PHATRDRAFT_46470 (BAR)

PHATRDRAFT_46470 - (BAR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46470
PHATRDRAFT_46475

PHATRDRAFT_46475 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46475
PHATRDRAFT_46577 pseudouridylate synthase (PseudoU_synth_RluCD_like)

PHATRDRAFT_46577 - pseudouridylate synthase (PseudoU_synth_RluCD_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46577
PHATRDRAFT_46896 prolyl 4-hydroxylase alpha subunit-like2og-feoxygenase family protein (2OG-FeII_Oxy_3)

PHATRDRAFT_46896 - prolyl 4-hydroxylase alpha subunit-like2og-feoxygenase family protein (2OG-FeII_Oxy_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46896
PHATRDRAFT_47150

PHATRDRAFT_47150 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47150
PHATRDRAFT_47648

PHATRDRAFT_47648 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47648
PHATRDRAFT_48054 epsilon frustilin

PHATRDRAFT_48054 - epsilon frustilin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48054
PHATRDRAFT_48570 rhodanese domain protein (RHOD)

PHATRDRAFT_48570 - rhodanese domain protein (RHOD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48570
PHATRDRAFT_49160 (ARM)

PHATRDRAFT_49160 - (ARM)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49160
PHATRDRAFT_49212

PHATRDRAFT_49212 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49212
PHATRDRAFT_50364 sjchgc08052 protein

PHATRDRAFT_50364 - sjchgc08052 protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50364
PHATRDRAFT_50425 (Nsp1_C superfamily)

PHATRDRAFT_50425 - (Nsp1_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50425
PHATRDRAFT_50615 (Sec7)

PHATRDRAFT_50615 - (Sec7)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50615
PHATRDRAFT_50825 ruvb2_ustma-like helicase 2 (TIP49)

PHATRDRAFT_50825 - ruvb2_ustma-like helicase 2 (TIP49)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50825
PHATRDRAFT_54558 epsilon frustilin

PHATRDRAFT_54558 - epsilon frustilin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54558
PHATRDRAFT_8860 lecithin:cholesterol acyltransferase acyl-ceramide synthase (PLN02517 superfamily)

PHATRDRAFT_8860 - lecithin:cholesterol acyltransferase acyl-ceramide synthase (PLN02517 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8860
GO ID Go Term p-value q-value Cluster
GO:0006120 mitochondrial electron transport, NADH to ubiquinone 0.0103397 1 Phatr_bicluster_0035
GO:0006396 RNA processing 0.0153703 1 Phatr_bicluster_0035
GO:0006629 lipid metabolism 0.0605653 1 Phatr_bicluster_0035
GO:0007018 microtubule-based movement 0.0990303 1 Phatr_bicluster_0035
GO:0019538 protein metabolism 0.117709 1 Phatr_bicluster_0035
GO:0015986 ATP synthesis coupled proton transport 0.120788 1 Phatr_bicluster_0035
GO:0006810 transport 0.139001 1 Phatr_bicluster_0035
GO:0006118 electron transport 0.185759 1 Phatr_bicluster_0035
GO:0016567 protein ubiquitination 0.222443 1 Phatr_bicluster_0035
GO:0006457 protein folding 0.337129 1 Phatr_bicluster_0035
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