Phatr_bicluster_0144 Residual: 0.19
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_0144 0.19 Phaeodactylum tricornutum
Displaying 1 - 24 of 24
PHATRDRAFT_11311 silicon transporter (Silic_transp superfamily)

PHATRDRAFT_11311 - silicon transporter (Silic_transp superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11311
PHATRDRAFT_14639 at5g36790 f5h8_20 (HAD-SF-IIA)

PHATRDRAFT_14639 - at5g36790 f5h8_20 (HAD-SF-IIA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14639
PHATRDRAFT_21410 mitogen-activated protein kinase (STKc_MAPK)

PHATRDRAFT_21410 - mitogen-activated protein kinase (STKc_MAPK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21410
PHATRDRAFT_31453

PHATRDRAFT_31453 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31453
PHATRDRAFT_32938 potassiumsubfamilymember 16 (Ion_trans_2)

PHATRDRAFT_32938 - potassiumsubfamilymember 16 (Ion_trans_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32938
PHATRDRAFT_34790

PHATRDRAFT_34790 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34790
PHATRDRAFT_34868

PHATRDRAFT_34868 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34868
PHATRDRAFT_42591

PHATRDRAFT_35151 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35151
PHATRDRAFT_42677 (CRCB)

PHATRDRAFT_42591 - (CRCB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42591
PHATRDRAFT_42743 at4g27720 t29a15_210 (SAP)

PHATRDRAFT_42677 - at4g27720 t29a15_210 (SAP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42677
PHATRDRAFT_43046 membrane protein (Rhomboid)

PHATRDRAFT_42743 - membrane protein (Rhomboid)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42743
PHATRDRAFT_43667 cyclin b3 (CYCLIN)

PHATRDRAFT_43046 - cyclin b3 (CYCLIN)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43046
PHATRDRAFT_43775 glyoxalase hydroxyacylglutathione (Lactamase_B superfamily)

PHATRDRAFT_43667 - glyoxalase hydroxyacylglutathione (Lactamase_B superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43667
PHATRDRAFT_44333

PHATRDRAFT_43775 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43775
PHATRDRAFT_44905 gamma-tubulin interacting protein (Spc97_Spc98)

PHATRDRAFT_44333 - gamma-tubulin interacting protein (Spc97_Spc98)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44333
PHATRDRAFT_45254 dolichyl glycosyltransferase (Alg6_Alg8 superfamily)

PHATRDRAFT_44905 - dolichyl glycosyltransferase (Alg6_Alg8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44905
PHATRDRAFT_45432

PHATRDRAFT_45254 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45254
PHATRDRAFT_47846 viral a-type inclusion

PHATRDRAFT_45432 - viral a-type inclusion

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45432
PHATRDRAFT_49355 pheromone-regulated membrane protein prm10 (COG2966)

PHATRDRAFT_47846 - pheromone-regulated membrane protein prm10 (COG2966)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47846
PHATRDRAFT_50345 floral homeotic protein hua1 (zf-CCCH)

PHATRDRAFT_49355 - floral homeotic protein hua1 (zf-CCCH)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49355
PHATRDRAFT_8598 floral homeotic protein hua1 (zf-CCCH)

PHATRDRAFT_50345 - floral homeotic protein hua1 (zf-CCCH)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50345
PHATRDRAFT_8678 b-type cyclin (CYCLIN)

PHATRDRAFT_8598 - b-type cyclin (CYCLIN)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8598
PHATRDRAFT_9185 loc495505 protein (vWFA superfamily)

PHATRDRAFT_8678 - loc495505 protein (vWFA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8678

PHATRDRAFT_9185 - novel proteinvertebrate gtp binding protein 2 (GTPBP1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9185
GO ID Go Term p-value q-value Cluster
GO:0000074 regulation of cell cycle 0.00185698 1 Phatr_bicluster_0144
GO:0000226 microtubule cytoskeleton organization and biogenesis 0.00394818 1 Phatr_bicluster_0144
GO:0006813 potassium ion transport 0.0388725 1 Phatr_bicluster_0144
GO:0006418 tRNA aminoacylation for protein translation 0.0983212 1 Phatr_bicluster_0144
GO:0006412 protein biosynthesis 0.277391 1 Phatr_bicluster_0144
GO:0006468 protein amino acid phosphorylation 0.2936 1 Phatr_bicluster_0144
GO:0008152 metabolism 0.453158 1 Phatr_bicluster_0144
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