Phatr_bicluster_0047 Residual: 0.27
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_0047 0.27 Phaeodactylum tricornutum
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Displaying 1 - 22 of 22
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PHATRDRAFT_14397 peroxisome biogenesis disorder protein 1 (AAA)

PHATRDRAFT_14397 - peroxisome biogenesis disorder protein 1 (AAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14397
PHATRDRAFT_14767 heat shock protein 86 family protein (SynMuv_product superfamily)

PHATRDRAFT_14767 - heat shock protein 86 family protein (SynMuv_product superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14767
PHATRDRAFT_14981 chromosome 14 open reading frame 169 (Cupin_8 superfamily)

PHATRDRAFT_14981 - chromosome 14 open reading frame 169 (Cupin_8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14981
PHATRDRAFT_15481 (BING4CT)

PHATRDRAFT_15481 - (BING4CT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15481
PHATRDRAFT_15689 mgc114896 protein (PqqL)

PHATRDRAFT_15689 - mgc114896 protein (PqqL)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15689
PHATRDRAFT_16141 protein arginine n-methyltransferase 5 (PRMT5 superfamily)

PHATRDRAFT_16141 - protein arginine n-methyltransferase 5 (PRMT5 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16141
PHATRDRAFT_16357 regulator of nonsense transcripts (AAA_12)

PHATRDRAFT_16357 - regulator of nonsense transcripts (AAA_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16357
PHATRDRAFT_23826 cell division control proteinaaa family (SpoVK)

PHATRDRAFT_23826 - cell division control proteinaaa family (SpoVK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23826
PHATRDRAFT_39019

PHATRDRAFT_39019 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39019
PHATRDRAFT_43822 ribosomal rna processing 15 homolog (Rrp15p)

PHATRDRAFT_43822 - ribosomal rna processing 15 homolog (Rrp15p)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43822
PHATRDRAFT_44357

PHATRDRAFT_44357 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44357
PHATRDRAFT_45083

PHATRDRAFT_45083 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45083
PHATRDRAFT_47328 (SAP)

PHATRDRAFT_47328 - (SAP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47328
PHATRDRAFT_47371 (Urb2 superfamily)

PHATRDRAFT_47371 - (Urb2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47371
PHATRDRAFT_47422 hypothetical ankyrin-repeat protein (ANK)

PHATRDRAFT_47422 - hypothetical ankyrin-repeat protein (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47422
PHATRDRAFT_48416 nol1 nop2 sun domainmember 2 (Sun)

PHATRDRAFT_48416 - nol1 nop2 sun domainmember 2 (Sun)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48416
PHATRDRAFT_48945

PHATRDRAFT_48945 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48945
PHATRDRAFT_49108

PHATRDRAFT_49108 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49108
PHATRDRAFT_49166

PHATRDRAFT_49166 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49166
PHATRDRAFT_49387 transcriptional coactivator caper (rrm superfamily) (RRM2_gar2)

PHATRDRAFT_49387 - transcriptional coactivator caper (rrm superfamily) (RRM2_gar2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49387
PHATRDRAFT_49719 coiled-coil domain containing 86

PHATRDRAFT_49719 - coiled-coil domain containing 86

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49719
PHATRDRAFT_55141 exosome complex exonuclease rrp42 (ribosomal rna processing protein 42 (RNase_PH superfamily)

PHATRDRAFT_55141 - exosome complex exonuclease rrp42 (ribosomal rna processing protein 42 (RNase_PH superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55141
GO ID Go Term p-value q-value Cluster
GO:0006418 tRNA aminoacylation for protein translation 0.0255236 1 Phatr_bicluster_0047
GO:0006508 proteolysis and peptidolysis 0.107597 1 Phatr_bicluster_0047
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