Phatr_bicluster_0247 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_0247 0.46 Phaeodactylum tricornutum
Displaying 1 - 29 of 29
PHATRDRAFT_10286

PHATRDRAFT_10286 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10286
PHATRDRAFT_11401 elicitin protein ram6

PHATRDRAFT_11401 - elicitin protein ram6

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11401
PHATRDRAFT_32684

PHATRDRAFT_32684 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32684
PHATRDRAFT_33124 copia protein (gag-int-pol protein)

PHATRDRAFT_33124 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33124
PHATRDRAFT_34085 (Glyoxalase_3)

PHATRDRAFT_34085 - (Glyoxalase_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34085
PHATRDRAFT_35009

PHATRDRAFT_35009 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35009
PHATRDRAFT_35102

PHATRDRAFT_35102 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35102
PHATRDRAFT_36444

PHATRDRAFT_36444 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36444
PHATRDRAFT_37064

PHATRDRAFT_37064 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37064
PHATRDRAFT_37580 mucin 2 precursor

PHATRDRAFT_37580 - mucin 2 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37580
PHATRDRAFT_37902 mucin 2 precursor

PHATRDRAFT_37902 - mucin 2 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37902
PHATRDRAFT_38388 mucin 2 precursor

PHATRDRAFT_38388 - mucin 2 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38388
PHATRDRAFT_38408

PHATRDRAFT_38408 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38408
PHATRDRAFT_38410

PHATRDRAFT_38410 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38410
PHATRDRAFT_39363

PHATRDRAFT_39363 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39363
PHATRDRAFT_39391

PHATRDRAFT_39391 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39391
PHATRDRAFT_39762 mucin 2 precursor

PHATRDRAFT_39762 - mucin 2 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39762
PHATRDRAFT_39794 heat shock factor cg5748-isoform d (HSF_DNA-bind superfamily)

PHATRDRAFT_39794 - heat shock factor cg5748-isoform d (HSF_DNA-bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39794
PHATRDRAFT_40645

PHATRDRAFT_40645 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40645
PHATRDRAFT_40843 mucin 2 precursor

PHATRDRAFT_40843 - mucin 2 precursor

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40843
PHATRDRAFT_40968

PHATRDRAFT_40968 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40968
PHATRDRAFT_42322 casein kinase (Pkinase)

PHATRDRAFT_42322 - casein kinase (Pkinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42322
PHATRDRAFT_45245

PHATRDRAFT_45245 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45245
PHATRDRAFT_45384 (DnaJ)

PHATRDRAFT_45384 - (DnaJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45384
PHATRDRAFT_51110

PHATRDRAFT_48336 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48336
PHATRDRAFT_54547 casein kinase (Pkinase)

PHATRDRAFT_51110 - casein kinase (Pkinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51110
PHATRDRAFT_8537 serine threonine kinase with two-component sensor domain (COG3899)

PHATRDRAFT_54547 - serine threonine kinase with two-component sensor domain (COG3899)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54547
PHATRDRAFT_8975 (kgd)

PHATRDRAFT_8537 - (kgd)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8537

PHATRDRAFT_8975 - glycerol-3-phosphate dehydrogenase (gpsA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8975
GO ID Go Term p-value q-value Cluster
GO:0006310 DNA recombination 0.00000398 0.00922066 Phatr_bicluster_0247
GO:0046168 glycerol-3-phosphate catabolism 0.00641182 1 Phatr_bicluster_0247
GO:0006072 glycerol-3-phosphate metabolism 0.0127857 1 Phatr_bicluster_0247
GO:0007018 microtubule-based movement 0.0922831 1 Phatr_bicluster_0247
GO:0006468 protein amino acid phosphorylation 0.102976 1 Phatr_bicluster_0247
GO:0007165 signal transduction 0.141021 1 Phatr_bicluster_0247
GO:0005975 carbohydrate metabolism 0.184674 1 Phatr_bicluster_0247
GO:0006457 protein folding 0.317339 1 Phatr_bicluster_0247
GO:0006355 regulation of transcription, DNA-dependent 0.515177 1 Phatr_bicluster_0247
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