Phatr_bicluster_0026 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_0026 0.46 Phaeodactylum tricornutum
Displaying 1 - 31 of 31
PHATRDRAFT_10282 dead h (asp-glu-ala-asp his) box polypeptide 11 (chl1-like helicasecerevisiae) (DEAD_2)

PHATRDRAFT_10282 - dead h (asp-glu-ala-asp his) box polypeptide 11 (chl1-like helicasecerevisiae) (DEAD_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10282
PHATRDRAFT_27726 (ATG_C superfamily)

PHATRDRAFT_16669 - (ATG_C superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16669
PHATRDRAFT_32803 ornithine aminotransferase (OAT_like)

PHATRDRAFT_27726 - ornithine aminotransferase (OAT_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_27726
PHATRDRAFT_33610 major facilitator superfamily mfs_1 (2A0111)

PHATRDRAFT_32095 - major facilitator superfamily mfs_1 (2A0111)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32095
PHATRDRAFT_36502 anion-transporting atpase family protein (ArsA_ATPase)

PHATRDRAFT_32803 - anion-transporting atpase family protein (ArsA_ATPase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32803
PHATRDRAFT_40588 trna- trna (PcnB)

PHATRDRAFT_33610 - trna- trna (PcnB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33610
PHATRDRAFT_40831

PHATRDRAFT_36502 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36502
PHATRDRAFT_43033 dmt family transporter: drug metabolite (RhaT)

PHATRDRAFT_40588 - dmt family transporter: drug metabolite (RhaT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40588
PHATRDRAFT_43154 domain containing (TraB superfamily)

PHATRDRAFT_40831 - domain containing (TraB superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40831
PHATRDRAFT_43315 ubx2_schpo ubx domain-containing protein 2 (UAS)

PHATRDRAFT_43033 - ubx2_schpo ubx domain-containing protein 2 (UAS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43033
PHATRDRAFT_44045

PHATRDRAFT_43154 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43154
PHATRDRAFT_45112 class i and ii (PRK05764)

PHATRDRAFT_43315 - class i and ii (PRK05764)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43315
PHATRDRAFT_45536 (AhpC-TSA_2)

PHATRDRAFT_44045 - (AhpC-TSA_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44045
PHATRDRAFT_45887 heat shock transcription factor (HSF_DNA-bind)

PHATRDRAFT_45112 - heat shock transcription factor (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45112
PHATRDRAFT_47285 possible protein kinase:abc1 family (AarF)

PHATRDRAFT_45536 - possible protein kinase:abc1 family (AarF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45536
PHATRDRAFT_47363 at1g32080 f3c3_12 (LrgB superfamily)

PHATRDRAFT_45887 - at1g32080 f3c3_12 (LrgB superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45887
PHATRDRAFT_48087 (Alpha_kinase)

PHATRDRAFT_47285 - (Alpha_kinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47285
PHATRDRAFT_48329

PHATRDRAFT_47363 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47363
PHATRDRAFT_49112

PHATRDRAFT_48087 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48087
PHATRDRAFT_49401 frizzled-8 associated multidomain protein

PHATRDRAFT_48329 - frizzled-8 associated multidomain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48329
PHATRDRAFT_49596 homogentisate-dioxygenase (PLN02658)

PHATRDRAFT_49112 - homogentisate-dioxygenase (PLN02658)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49112
PHATRDRAFT_49644

PHATRDRAFT_49401 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49401
PHATRDRAFT_49751 hsf8_lycpeheat shock factor protein hsf8 (heat shock transcription factor 8) (hstf 8) (heat stress transcription factor) (HSF_DNA-bind)

PHATRDRAFT_49596 - hsf8_lycpeheat shock factor protein hsf8 (heat shock transcription factor 8) (hstf 8) (heat stress transcription factor) (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49596
PHATRDRAFT_49822 flavoprotein monooxygenase (NAD_binding_8 superfamily)

PHATRDRAFT_49644 - flavoprotein monooxygenase (NAD_binding_8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49644
PHATRDRAFT_49849 (NBD_sugar-kinase_HSP70_actin superfamily)

PHATRDRAFT_49751 - (NBD_sugar-kinase_HSP70_actin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49751
PHATRDRAFT_49866 (DUF4239 superfamily)

PHATRDRAFT_49822 - (DUF4239 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49822
PHATRDRAFT_50384 nucleotide-sugar transporter family protein

PHATRDRAFT_49849 - nucleotide-sugar transporter family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49849
PHATRDRAFT_54757

PHATRDRAFT_49866 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49866
PHATRDRAFT_55176 methionine sulfoxide reductase a (PMSR superfamily)

PHATRDRAFT_50384 - methionine sulfoxide reductase a (PMSR superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50384

PHATRDRAFT_54757 - ankrd12 protein (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54757

PHATRDRAFT_55176 - chloroplast thylakoid 11 kda protein (Pentapeptide_4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55176
GO ID Go Term p-value q-value Cluster
GO:0006559 L-phenylalanine catabolism 0.00493949 1 Phatr_bicluster_0026
GO:0006570 tyrosine metabolism 0.00493949 1 Phatr_bicluster_0026
GO:0006289 nucleotide-excision repair 0.0244666 1 Phatr_bicluster_0026
GO:0006605 protein targeting 0.0292912 1 Phatr_bicluster_0026
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0530761 1 Phatr_bicluster_0026
GO:0006820 anion transport 0.0577662 1 Phatr_bicluster_0026
GO:0008643 carbohydrate transport 0.0763067 1 Phatr_bicluster_0026
GO:0006725 aromatic compound metabolism 0.0945003 1 Phatr_bicluster_0026
GO:0006886 intracellular protein transport 0.180476 1 Phatr_bicluster_0026
GO:0009058 biosynthesis 0.200725 1 Phatr_bicluster_0026
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