Phatr_bicluster_0197 Residual: 0.17
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_0197 0.17 Phaeodactylum tricornutum
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Displaying 1 - 19 of 19
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PHATRDRAFT_10196 drosophila melanogaster cg9091 (PTZ00073)

PHATRDRAFT_10196 - drosophila melanogaster cg9091 (PTZ00073)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10196
PHATRDRAFT_11032 60s ribosomal protein l26 (KOW_RPL26)

PHATRDRAFT_11032 - 60s ribosomal protein l26 (KOW_RPL26)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11032
PHATRDRAFT_15740 60s acidic ribosomal protein (Ribosomal_P2)

PHATRDRAFT_15740 - 60s acidic ribosomal protein (Ribosomal_P2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15740
PHATRDRAFT_16125 ribosomal protein l39 (Ribosomal_L39)

PHATRDRAFT_16125 - ribosomal protein l39 (Ribosomal_L39)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16125
PHATRDRAFT_19314 ribosomal protein s17 (Ribosomal_S17e)

PHATRDRAFT_19314 - ribosomal protein s17 (Ribosomal_S17e)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_19314
PHATRDRAFT_21323 ribosomal protein s19 (PTZ00071)

PHATRDRAFT_21323 - ribosomal protein s19 (PTZ00071)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21323
PHATRDRAFT_23691 40s ribosomal protein (PTZ00158)

PHATRDRAFT_23691 - 40s ribosomal protein (PTZ00158)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23691
PHATRDRAFT_25714 ribosomal protein l15 (PTZ00026)

PHATRDRAFT_25714 - ribosomal protein l15 (PTZ00026)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_25714
PHATRDRAFT_26849 ribosomal protein s15 (PTZ00096)

PHATRDRAFT_26849 - ribosomal protein s15 (PTZ00096)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_26849
PHATRDRAFT_28562 ribosomal protein s11 (PTZ00241)

PHATRDRAFT_28562 - ribosomal protein s11 (PTZ00241)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28562
PHATRDRAFT_30262 ribosomal protein l19e (Ribosomal_L19e_E)

PHATRDRAFT_30262 - ribosomal protein l19e (Ribosomal_L19e_E)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_30262
PHATRDRAFT_30486 40s ribosomal protein s18 (PTZ00134)

PHATRDRAFT_30486 - 40s ribosomal protein s18 (PTZ00134)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_30486
PHATRDRAFT_31073 ribosomal protein s7 isoform 1 (Ribosomal_S7e)

PHATRDRAFT_31073 - ribosomal protein s7 isoform 1 (Ribosomal_S7e)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31073
PHATRDRAFT_31919 ribosomal protein l5 (PTZ00069)

PHATRDRAFT_31919 - ribosomal protein l5 (PTZ00069)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31919
PHATRDRAFT_43162 ribosomal proteincomponent of cytosolic 80s ribosome and 60s large subunit (PTZ00160)

PHATRDRAFT_43162 - ribosomal proteincomponent of cytosolic 80s ribosome and 60s large subunit (PTZ00160)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43162
PHATRDRAFT_46735 60s ribosomal protein l21 (PLN00190)

PHATRDRAFT_46735 - 60s ribosomal protein l21 (PLN00190)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46735
PHATRDRAFT_47804 ribosomal protein l37 (PTZ00255)

PHATRDRAFT_47804 - ribosomal protein l37 (PTZ00255)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47804
PHATRDRAFT_48699 rl101_orysj 60s ribosomal protein l10-1 (tumor suppressor sc34) (protein qm) (Ribosomal_L16_L10e)

PHATRDRAFT_48699 - rl101_orysj 60s ribosomal protein l10-1 (tumor suppressor sc34) (protein qm) (Ribosomal_L16_L10e)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48699
PHATRDRAFT_50259 ribosomal protein l23 (Ribosomal_L14 superfamily)

PHATRDRAFT_50259 - ribosomal protein l23 (Ribosomal_L14 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50259
GO ID Go Term p-value q-value Cluster
GO:0006412 protein biosynthesis 4.39e-25 1.02e-21 Phatr_bicluster_0197
GO:0006414 translational elongation 0.063828 1 Phatr_bicluster_0197
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