Phatr_bicluster_0060 Residual: 0.37
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_0060 0.37 Phaeodactylum tricornutum
Displaying 1 - 39 of 39
PHATRDRAFT_1129 glycerol phosphate dehydrogenasemitochondrial (GlpA)

PHATRDRAFT_1129 - glycerol phosphate dehydrogenasemitochondrial (GlpA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1129
PHATRDRAFT_11940 glucose-regulated protein (HSP70_NBD)

PHATRDRAFT_11940 - glucose-regulated protein (HSP70_NBD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11940
PHATRDRAFT_12810 imidazoleglycerol-phosphate dehydratase (PLN02800)

PHATRDRAFT_12810 - imidazoleglycerol-phosphate dehydratase (PLN02800)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12810
PHATRDRAFT_13578 at5g08500 mah20_6 (CLPTM1 superfamily)

PHATRDRAFT_13578 - at5g08500 mah20_6 (CLPTM1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13578
PHATRDRAFT_13779 thyroid hormone receptor interactor (AAA)

PHATRDRAFT_13779 - thyroid hormone receptor interactor (AAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13779
PHATRDRAFT_14096 thioredoxin family protein (TRX_family)

PHATRDRAFT_14096 - thioredoxin family protein (TRX_family)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14096
PHATRDRAFT_15083 zgc:55605 protein (Zinc_peptidase_like superfamily)

PHATRDRAFT_15083 - zgc:55605 protein (Zinc_peptidase_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15083
PHATRDRAFT_15399 microsomal signal peptidase 25 kda (SPC25)

PHATRDRAFT_15399 - microsomal signal peptidase 25 kda (SPC25)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15399
PHATRDRAFT_15472 stromal cell-derived factor 2-like 1

PHATRDRAFT_15472 - stromal cell-derived factor 2-like 1

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15472
PHATRDRAFT_15795 ubiquitin fusion degradation ufd1 family protein (UFD1 superfamily)

PHATRDRAFT_15795 - ubiquitin fusion degradation ufd1 family protein (UFD1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15795
PHATRDRAFT_16786 shd atp binding (PRK05218)

PHATRDRAFT_16786 - shd atp binding (PRK05218)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16786
PHATRDRAFT_18533 microsomal signal peptidase 23 kd subunit (spc22 23) (SPC22 superfamily)

PHATRDRAFT_18533 - microsomal signal peptidase 23 kd subunit (spc22 23) (SPC22 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18533
PHATRDRAFT_21501 phosphatidylinositol 4-kinase (PI3Kc_like superfamily)

PHATRDRAFT_21501 - phosphatidylinositol 4-kinase (PI3Kc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21501
PHATRDRAFT_21519 glucose regulated protein (PTZ00009)

PHATRDRAFT_21519 - glucose regulated protein (PTZ00009)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21519
PHATRDRAFT_23164 peptidyl-prolyl cis-transcyclophilin-type family protein (cyclophilin_ABH_like)

PHATRDRAFT_23164 - peptidyl-prolyl cis-transcyclophilin-type family protein (cyclophilin_ABH_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23164
PHATRDRAFT_28497 enoyl coenzyme a hydrataseperoxisomal (PRK06142)

PHATRDRAFT_28497 - enoyl coenzyme a hydrataseperoxisomal (PRK06142)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28497
PHATRDRAFT_32237 armet-like protein precursor (Armet superfamily)

PHATRDRAFT_32237 - armet-like protein precursor (Armet superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32237
PHATRDRAFT_32929 pns1_neucr protein pns1 (Choline_transpo)

PHATRDRAFT_32929 - pns1_neucr protein pns1 (Choline_transpo)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32929
PHATRDRAFT_33757 subunit of golgi mannosyltransferase complex (Glyco_transf_34 superfamily)

PHATRDRAFT_33757 - subunit of golgi mannosyltransferase complex (Glyco_transf_34 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33757
PHATRDRAFT_34631

PHATRDRAFT_34631 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34631
PHATRDRAFT_37671 nadph-dependent fmn reductase (FMN_red)

PHATRDRAFT_37671 - nadph-dependent fmn reductase (FMN_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37671
PHATRDRAFT_38338 heat shock protein hsp70 family protein

PHATRDRAFT_38338 - heat shock protein hsp70 family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38338
PHATRDRAFT_40031

PHATRDRAFT_40031 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40031
PHATRDRAFT_40080 orf 73

PHATRDRAFT_40080 - orf 73

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40080
PHATRDRAFT_41157

PHATRDRAFT_41157 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41157
PHATRDRAFT_43058 calcyclin binding protein (p23_CacyBP)

PHATRDRAFT_43058 - calcyclin binding protein (p23_CacyBP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43058
PHATRDRAFT_44430

PHATRDRAFT_44430 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44430
PHATRDRAFT_45036

PHATRDRAFT_45036 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45036
PHATRDRAFT_45135 (MPN superfamily)

PHATRDRAFT_45135 - (MPN superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45135
PHATRDRAFT_46418

PHATRDRAFT_46418 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46418
PHATRDRAFT_47192 (VHS_ENTH_ANTH superfamily)

PHATRDRAFT_47192 - (VHS_ENTH_ANTH superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47192
PHATRDRAFT_47589 af462824_1 at5g58110 k21l19_90 (Aha1_N superfamily)

PHATRDRAFT_47589 - af462824_1 at5g58110 k21l19_90 (Aha1_N superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47589
PHATRDRAFT_48657

PHATRDRAFT_48657 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48657
PHATRDRAFT_49158 protein disulfide isomerase (PDI_a_family)

PHATRDRAFT_49158 - protein disulfide isomerase (PDI_a_family)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49158
PHATRDRAFT_50544

PHATRDRAFT_50544 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50544
PHATRDRAFT_50577 acetylornithine aminotransferase (OAT_like)

PHATRDRAFT_50577 - acetylornithine aminotransferase (OAT_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50577
PHATRDRAFT_5466 der1-like domainmember 3 (DER1 superfamily)

PHATRDRAFT_5466 - der1-like domainmember 3 (DER1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5466
PHATRDRAFT_55122 heat shock protein (HYOU1-like_NBD)

PHATRDRAFT_55122 - heat shock protein (HYOU1-like_NBD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55122
PHATRDRAFT_55230 heat shock protein 90 (PTZ00272)

PHATRDRAFT_55230 - heat shock protein 90 (PTZ00272)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55230
GO ID Go Term p-value q-value Cluster
GO:0006465 signal peptide processing 0.0000875 0.201402 Phatr_bicluster_0060
GO:0006525 arginine metabolism 0.00788854 1 Phatr_bicluster_0060
GO:0006072 glycerol-3-phosphate metabolism 0.0157187 1 Phatr_bicluster_0060
GO:0000105 histidine biosynthesis 0.0350414 1 Phatr_bicluster_0060
GO:0006118 electron transport 0.057921 1 Phatr_bicluster_0060
GO:0006457 protein folding 0.0763282 1 Phatr_bicluster_0060
GO:0006520 amino acid metabolism 0.0908976 1 Phatr_bicluster_0060
GO:0006511 ubiquitin-dependent protein catabolism 0.16402 1 Phatr_bicluster_0060
GO:0006508 proteolysis and peptidolysis 0.220641 1 Phatr_bicluster_0060
GO:0006810 transport 0.539115 1 Phatr_bicluster_0060
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