Phatr_bicluster_0150 Residual: 0.31
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_0150 0.31 Phaeodactylum tricornutum
Displaying 1 - 26 of 26
PHATRDRAFT_11308 sjchgc05278 protein (RRM_PPIE)

PHATRDRAFT_11308 - sjchgc05278 protein (RRM_PPIE)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11308
PHATRDRAFT_31375 chromatin modifying protein 1b (Snf7 superfamily)

PHATRDRAFT_31375 - chromatin modifying protein 1b (Snf7 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31375
PHATRDRAFT_37667 conserved protein (NADB_Rossmann superfamily)

PHATRDRAFT_37667 - conserved protein (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37667
PHATRDRAFT_38474 rna-binding region rnp-1 (RRM_SF)

PHATRDRAFT_38474 - rna-binding region rnp-1 (RRM_SF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38474
PHATRDRAFT_38720 fucoxanthin chlorophyll a c binding protein (Chloroa_b-bind)

PHATRDRAFT_38720 - fucoxanthin chlorophyll a c binding protein (Chloroa_b-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38720
PHATRDRAFT_38985 coenzyme q biosynthesis protein (Coq4 superfamily)

PHATRDRAFT_38985 - coenzyme q biosynthesis protein (Coq4 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38985
PHATRDRAFT_42578 (PPI_Ypi1)

PHATRDRAFT_42578 - (PPI_Ypi1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42578
PHATRDRAFT_43874

PHATRDRAFT_43874 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43874
PHATRDRAFT_44043 loc495158 protein (Methyltransf_16 superfamily)

PHATRDRAFT_44043 - loc495158 protein (Methyltransf_16 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44043
PHATRDRAFT_47747

PHATRDRAFT_47747 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47747
PHATRDRAFT_47760

PHATRDRAFT_47760 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47760
PHATRDRAFT_47847 (Arrestin_N superfamily)

PHATRDRAFT_47847 - (Arrestin_N superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47847
PHATRDRAFT_48086 (META superfamily)

PHATRDRAFT_48086 - (META superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48086
PHATRDRAFT_48461

PHATRDRAFT_48461 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48461
PHATRDRAFT_48482 ac007202_7 ests gb (DUF2358 superfamily)

PHATRDRAFT_48482 - ac007202_7 ests gb (DUF2358 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48482
PHATRDRAFT_48572 hsf-type dna-binding domain containing protein (HSF_DNA-bind superfamily)

PHATRDRAFT_48572 - hsf-type dna-binding domain containing protein (HSF_DNA-bind superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48572
PHATRDRAFT_49055

PHATRDRAFT_49055 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49055
PHATRDRAFT_49135

PHATRDRAFT_49135 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49135
PHATRDRAFT_49361

PHATRDRAFT_49361 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49361
PHATRDRAFT_49431

PHATRDRAFT_49431 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49431
PHATRDRAFT_49757

PHATRDRAFT_49757 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49757
PHATRDRAFT_50127

PHATRDRAFT_50127 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50127
PHATRDRAFT_50194

PHATRDRAFT_50194 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50194
PHATRDRAFT_50531

PHATRDRAFT_50531 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50531
PHATRDRAFT_54569 (BglC)

PHATRDRAFT_54569 - (BglC)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54569
PHATRDRAFT_55100

PHATRDRAFT_55100 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55100
GO ID Go Term p-value q-value Cluster
GO:0009765 photosynthesis light harvesting 0.0191736 1 Phatr_bicluster_0150
GO:0006355 regulation of transcription, DNA-dependent 0.105262 1 Phatr_bicluster_0150
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