Phatr_bicluster_0162 Residual: 0.30
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_0162 0.30 Phaeodactylum tricornutum
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 36 of 36
" class="views-fluidgrid-wrapper clear-block">
PHATRDRAFT_10187 (AdoMet_MTases)

PHATRDRAFT_10187 - (AdoMet_MTases)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10187
PHATRDRAFT_10659 protein phosphatase 2c (PP2Cc)

PHATRDRAFT_10659 - protein phosphatase 2c (PP2Cc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10659
PHATRDRAFT_15229 protein kinase (PKc_like superfamily)

PHATRDRAFT_15229 - protein kinase (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15229
PHATRDRAFT_15699 peroxisomal membrane (Mpv17_PMP22)

PHATRDRAFT_15699 - peroxisomal membrane (Mpv17_PMP22)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15699
PHATRDRAFT_17115 trna-dihydrouridine synthase (DUS_like_FMN)

PHATRDRAFT_17115 - trna-dihydrouridine synthase (DUS_like_FMN)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_17115
PHATRDRAFT_35989 jumonji domain containing 6 (JmjC superfamily)

PHATRDRAFT_35989 - jumonji domain containing 6 (JmjC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35989
PHATRDRAFT_38965 (VacB)

PHATRDRAFT_38965 - (VacB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38965
PHATRDRAFT_38974 set domain containing protein

PHATRDRAFT_38974 - set domain containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38974
PHATRDRAFT_39235

PHATRDRAFT_39235 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39235
PHATRDRAFT_41094 cg9924-isoform c (BTB)

PHATRDRAFT_41094 - cg9924-isoform c (BTB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41094
PHATRDRAFT_47277

PHATRDRAFT_47277 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47277
PHATRDRAFT_47296 bernardinelli-seip congenital lipodystrophy 2 homologisoform cra_a (Seipin superfamily)

PHATRDRAFT_47296 - bernardinelli-seip congenital lipodystrophy 2 homologisoform cra_a (Seipin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47296
PHATRDRAFT_47326

PHATRDRAFT_47326 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47326
PHATRDRAFT_47647

PHATRDRAFT_47647 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47647
PHATRDRAFT_48056

PHATRDRAFT_48056 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48056
PHATRDRAFT_48071

PHATRDRAFT_48071 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48071
PHATRDRAFT_48255

PHATRDRAFT_48255 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48255
PHATRDRAFT_48341 uncharacterised conserved protein ucp028846 (DUF1237 superfamily)

PHATRDRAFT_48341 - uncharacterised conserved protein ucp028846 (DUF1237 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48341
PHATRDRAFT_48490 protein phosphatase 2c (PP2Cc)

PHATRDRAFT_48490 - protein phosphatase 2c (PP2Cc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48490
PHATRDRAFT_48679

PHATRDRAFT_48679 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48679
PHATRDRAFT_49142 (Patatin_and_cPLA2 superfamily)

PHATRDRAFT_49142 - (Patatin_and_cPLA2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49142
PHATRDRAFT_49280 zinc finger (c3hc4-type ring finger) family protein (RING)

PHATRDRAFT_49280 - zinc finger (c3hc4-type ring finger) family protein (RING)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49280
PHATRDRAFT_49337 core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

PHATRDRAFT_49337 - core 1 udp-galactose:n-acetylgalactosamine-alpha-r beta- galactosy

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49337
PHATRDRAFT_49419 mgc80481 protein

PHATRDRAFT_49419 - mgc80481 protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49419
PHATRDRAFT_49475

PHATRDRAFT_49475 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49475
PHATRDRAFT_49500 non-ribosomal peptide synthetase (AFD_class_I superfamily)

PHATRDRAFT_49500 - non-ribosomal peptide synthetase (AFD_class_I superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49500
PHATRDRAFT_4956 phosphoglycerate bisphosphoglycerate mutase family protein (His_Phos_1)

PHATRDRAFT_4956 - phosphoglycerate bisphosphoglycerate mutase family protein (His_Phos_1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4956
PHATRDRAFT_49651

PHATRDRAFT_49651 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49651
PHATRDRAFT_49682

PHATRDRAFT_49682 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49682
PHATRDRAFT_49889

PHATRDRAFT_49889 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49889
PHATRDRAFT_49898 methyltransferase type 11 (Glyco_trans_1_2)

PHATRDRAFT_49898 - methyltransferase type 11 (Glyco_trans_1_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49898
PHATRDRAFT_50541 histone methyltransferase (SET)

PHATRDRAFT_50541 - histone methyltransferase (SET)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50541
PHATRDRAFT_5235 camp-dependent protein kinase regulatory subunit (CAP_ED)

PHATRDRAFT_5235 - camp-dependent protein kinase regulatory subunit (CAP_ED)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5235
PHATRDRAFT_52504

PHATRDRAFT_52504 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52504
PHATRDRAFT_5286 af435449_1calcium calmodulin-dependent protein kinase4 (S_TKc)

PHATRDRAFT_5286 - af435449_1calcium calmodulin-dependent protein kinase4 (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5286
PHATRDRAFT_8461 adp-ribosylation factor gtpase activating protein 3 (ArfGap superfamily)

PHATRDRAFT_8461 - adp-ribosylation factor gtpase activating protein 3 (ArfGap superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8461
GO ID Go Term p-value q-value Cluster
GO:0006468 protein amino acid phosphorylation 0.00232378 1 Phatr_bicluster_0162
GO:0043087 regulation of GTPase activity 0.0188766 1 Phatr_bicluster_0162
GO:0005975 carbohydrate metabolism 0.104035 1 Phatr_bicluster_0162
GO:0016567 protein ubiquitination 0.118111 1 Phatr_bicluster_0162
GO:0008152 metabolism 0.410263 1 Phatr_bicluster_0162
Log in to post comments