Phatr_bicluster_0194 Residual: 0.22
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_0194 0.22 Phaeodactylum tricornutum
Displaying 1 - 22 of 22
PHATRDRAFT_35876 (SEC14)

PHATRDRAFT_35099 - (SEC14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35099
PHATRDRAFT_36517 (PDZ_signaling)

PHATRDRAFT_35876 - (PDZ_signaling)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35876
PHATRDRAFT_38235 immediate-early fungal elicitor protein (Ubox)

PHATRDRAFT_36517 - immediate-early fungal elicitor protein (Ubox)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36517
PHATRDRAFT_40136

PHATRDRAFT_38235 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38235
PHATRDRAFT_42510 aaa+-type atpase

PHATRDRAFT_40136 - aaa+-type atpase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40136
PHATRDRAFT_42568

PHATRDRAFT_42510 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42510
PHATRDRAFT_43027 helicase domain protein (HA)

PHATRDRAFT_42568 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42568
PHATRDRAFT_43362 nf-kappa-b inhibitor alpha (major histocompatibility complex enhancer-binding protein mad3) (i-kappa-b-alpha)(ikb-alpha) (ANK)

PHATRDRAFT_43027 - nf-kappa-b inhibitor alpha (major histocompatibility complex enhancer-binding protein mad3) (i-kappa-b-alpha)(ikb-alpha) (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43027
PHATRDRAFT_43777 establishment of cohesion 1 homolog 2 (zf-C2H2_3)

PHATRDRAFT_43362 - establishment of cohesion 1 homolog 2 (zf-C2H2_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43362
PHATRDRAFT_44677

PHATRDRAFT_43777 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43777
PHATRDRAFT_45045

PHATRDRAFT_44677 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44677
PHATRDRAFT_45074

PHATRDRAFT_45045 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45045
PHATRDRAFT_45677

PHATRDRAFT_45074 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45074
PHATRDRAFT_46306 (Pkinase)

PHATRDRAFT_45677 - (Pkinase)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45677
PHATRDRAFT_46310

PHATRDRAFT_46306 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46306
PHATRDRAFT_46501 (RIO1_like)

PHATRDRAFT_46310 - (RIO1_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46310
PHATRDRAFT_46593

PHATRDRAFT_46501 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46501
PHATRDRAFT_46601 soul heme-binding protein (NifU)

PHATRDRAFT_46593 - soul heme-binding protein (NifU)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46593
PHATRDRAFT_46645

PHATRDRAFT_46601 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46601
PHATRDRAFT_46795 transmembrane protein 34 (Solute_trans_a superfamily)

PHATRDRAFT_46645 - transmembrane protein 34 (Solute_trans_a superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46645
PHATRDRAFT_46942 protein kinase-like protein

PHATRDRAFT_46795 - protein kinase-like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46795

PHATRDRAFT_46942 - late embryogenesis abundant domain-containing protein lea domain-containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46942
GO ID Go Term p-value q-value Cluster
GO:0006468 protein amino acid phosphorylation 0.00523265 1 Phatr_bicluster_0194
GO:0016567 protein ubiquitination 0.0524162 1 Phatr_bicluster_0194
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