Phatr_bicluster_0096 Residual: 0.43
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_0096 0.43 Phaeodactylum tricornutum
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 26 of 26
" class="views-fluidgrid-wrapper clear-block">
PHATRDRAFT_15853 kinesin motor (Motor_domain superfamily)

PHATRDRAFT_15853 - kinesin motor (Motor_domain superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15853
PHATRDRAFT_20755 propanediol diffusion facilitator (MIP superfamily)

PHATRDRAFT_20755 - propanediol diffusion facilitator (MIP superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_20755
PHATRDRAFT_32992 (Peptidase_C14)

PHATRDRAFT_32992 - (Peptidase_C14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32992
PHATRDRAFT_33502 (Lumazine_bd_2)

PHATRDRAFT_33502 - (Lumazine_bd_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33502
PHATRDRAFT_33512 viral a-type inclusion (Smc)

PHATRDRAFT_33512 - viral a-type inclusion (Smc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33512
PHATRDRAFT_37185 lipolytic protein g-d-s-l family (SGNH_hydrolase superfamily)

PHATRDRAFT_37185 - lipolytic protein g-d-s-l family (SGNH_hydrolase superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37185
PHATRDRAFT_39908 lpxtg-motif cell wall anchor domain

PHATRDRAFT_39908 - lpxtg-motif cell wall anchor domain

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39908
PHATRDRAFT_39918 receptor protein kinase crinkly4 precursor-like protein (PKc_like superfamily)

PHATRDRAFT_39918 - receptor protein kinase crinkly4 precursor-like protein (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39918
PHATRDRAFT_42746

PHATRDRAFT_42746 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42746
PHATRDRAFT_43604 choline dehydrogenase (BetA)

PHATRDRAFT_43604 - choline dehydrogenase (BetA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43604
PHATRDRAFT_43694 5-nucleotidase 2-cyclic phosphodiesterase and related esterases (MPP_CD73_N)

PHATRDRAFT_43694 - 5-nucleotidase 2-cyclic phosphodiesterase and related esterases (MPP_CD73_N)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43694
PHATRDRAFT_43792 lactoylglutathione lyase (Glo_EDI_BRP_like_19)

PHATRDRAFT_43792 - lactoylglutathione lyase (Glo_EDI_BRP_like_19)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43792
PHATRDRAFT_44119

PHATRDRAFT_44119 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44119
PHATRDRAFT_44758 small multidrug resistance protein (EmrE)

PHATRDRAFT_44758 - small multidrug resistance protein (EmrE)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44758
PHATRDRAFT_45050 ankyrin repeat domain 28 (ANK)

PHATRDRAFT_45050 - ankyrin repeat domain 28 (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45050
PHATRDRAFT_45763

PHATRDRAFT_45763 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45763
PHATRDRAFT_46157 sec14-like protein (SEC14)

PHATRDRAFT_46157 - sec14-like protein (SEC14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46157
PHATRDRAFT_46315

PHATRDRAFT_46315 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46315
PHATRDRAFT_46563 quinone oxidoreductase

PHATRDRAFT_46563 - quinone oxidoreductase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46563
PHATRDRAFT_48204 alcohol oxidase (NAD_binding_8 superfamily)

PHATRDRAFT_48204 - alcohol oxidase (NAD_binding_8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48204
PHATRDRAFT_48611 (Rab3-GTPase_cat)

PHATRDRAFT_48611 - (Rab3-GTPase_cat)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48611
PHATRDRAFT_48862 (Aldo_ket_red)

PHATRDRAFT_48862 - (Aldo_ket_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48862
PHATRDRAFT_48896

PHATRDRAFT_48896 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48896
PHATRDRAFT_48961

PHATRDRAFT_48961 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48961
PHATRDRAFT_48964

PHATRDRAFT_48964 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48964
PHATRDRAFT_49228

PHATRDRAFT_49228 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49228
GO ID Go Term p-value q-value Cluster
GO:0009166 nucleotide catabolism 0.00665514 1 Phatr_bicluster_0096
GO:0006118 electron transport 0.0116312 1 Phatr_bicluster_0096
GO:0006810 transport 0.0640448 1 Phatr_bicluster_0096
GO:0007018 microtubule-based movement 0.0648028 1 Phatr_bicluster_0096
GO:0006468 protein amino acid phosphorylation 0.323667 1 Phatr_bicluster_0096
GO:0006508 proteolysis and peptidolysis 0.401138 1 Phatr_bicluster_0096
Log in to post comments