Phatr_bicluster_0032 Residual: 0.44
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_0032 0.44 Phaeodactylum tricornutum
Displaying 1 - 49 of 49
PHATRDRAFT_13951 glu leu phe terminal (PRK09414)

PHATRDRAFT_13951 - glu leu phe terminal (PRK09414)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13951
PHATRDRAFT_15730 sphingosine-1-phosphate lyase (GadB)

PHATRDRAFT_15730 - sphingosine-1-phosphate lyase (GadB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15730
PHATRDRAFT_16683 hydroxyacylglutathione hydrolase (GSH_gloB)

PHATRDRAFT_16683 - hydroxyacylglutathione hydrolase (GSH_gloB)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16683
PHATRDRAFT_16722 glucose-6-phosphate isomerase (PLN02649)

PHATRDRAFT_16722 - glucose-6-phosphate isomerase (PLN02649)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16722
PHATRDRAFT_18404 cndp dipeptidase 2 (metallopeptidase m20 family) (M20_dipept_like_CNDP)

PHATRDRAFT_18404 - cndp dipeptidase 2 (metallopeptidase m20 family) (M20_dipept_like_CNDP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18404
PHATRDRAFT_26802 histone h2a (PLN00157)

PHATRDRAFT_26802 - histone h2a (PLN00157)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_26802
PHATRDRAFT_31657

PHATRDRAFT_31657 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31657
PHATRDRAFT_34520

PHATRDRAFT_34520 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34520
PHATRDRAFT_34971 histone h4 (H4)

PHATRDRAFT_34971 - histone h4 (H4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34971
PHATRDRAFT_38760

PHATRDRAFT_38760 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38760
PHATRDRAFT_39627 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy--benz oquinol methylase (Methyltransf_31)

PHATRDRAFT_39627 - 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy--benz oquinol methylase (Methyltransf_31)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39627
PHATRDRAFT_39708 (ABC_subfamily_A)

PHATRDRAFT_39708 - (ABC_subfamily_A)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39708
PHATRDRAFT_39760 (ANK)

PHATRDRAFT_39760 - (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39760
PHATRDRAFT_42467 glycosylgroup 1 (GT1_like_2)

PHATRDRAFT_42467 - glycosylgroup 1 (GT1_like_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42467
PHATRDRAFT_42911

PHATRDRAFT_42911 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42911
PHATRDRAFT_43653

PHATRDRAFT_43653 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43653
PHATRDRAFT_43884 (LON)

PHATRDRAFT_43884 - (LON)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43884
PHATRDRAFT_43911

PHATRDRAFT_43911 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43911
PHATRDRAFT_44073

PHATRDRAFT_44073 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44073
PHATRDRAFT_44251 calcium-dependent protein kinase (EFh)

PHATRDRAFT_44251 - calcium-dependent protein kinase (EFh)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44251
PHATRDRAFT_44467

PHATRDRAFT_44467 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44467
PHATRDRAFT_44546 auxin-induced proteinexpressed (Aldo_ket_red)

PHATRDRAFT_44546 - auxin-induced proteinexpressed (Aldo_ket_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44546
PHATRDRAFT_44663

PHATRDRAFT_44663 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44663
PHATRDRAFT_44792 zinc finger

PHATRDRAFT_44792 - zinc finger

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44792
PHATRDRAFT_45021

PHATRDRAFT_45021 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45021
PHATRDRAFT_45087

PHATRDRAFT_45087 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45087
PHATRDRAFT_45115 (AAA)

PHATRDRAFT_45115 - (AAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45115
PHATRDRAFT_45130

PHATRDRAFT_45130 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45130
PHATRDRAFT_45406

PHATRDRAFT_45406 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45406
PHATRDRAFT_46307 proteophosphoglycan ppg4

PHATRDRAFT_46307 - proteophosphoglycan ppg4

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46307
PHATRDRAFT_47699 zinc finger (c3hc4-type ring finger) family protein (RING)

PHATRDRAFT_47699 - zinc finger (c3hc4-type ring finger) family protein (RING)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47699
PHATRDRAFT_47806 flavoprotein involved in k+ transport (TrkA)

PHATRDRAFT_47806 - flavoprotein involved in k+ transport (TrkA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47806
PHATRDRAFT_47842

PHATRDRAFT_47842 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47842
PHATRDRAFT_48025 j20 (dnaj-like 20) heat shock protein binding (DnaJ)

PHATRDRAFT_48025 - j20 (dnaj-like 20) heat shock protein binding (DnaJ)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48025
PHATRDRAFT_48130

PHATRDRAFT_48130 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48130
PHATRDRAFT_48378

PHATRDRAFT_48378 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48378
PHATRDRAFT_49362 high mobility group protein homolog tdp- (HMGB-UBF_HMG-box)

PHATRDRAFT_49362 - high mobility group protein homolog tdp- (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49362
PHATRDRAFT_49657 (FUSC_2)

PHATRDRAFT_49657 - (FUSC_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49657
PHATRDRAFT_49699

PHATRDRAFT_49699 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49699
PHATRDRAFT_49717 alcohol dehydrogenase zinc-binding domain protein (MDR1)

PHATRDRAFT_49717 - alcohol dehydrogenase zinc-binding domain protein (MDR1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49717
PHATRDRAFT_49978 bile acid:sodium symporter (SBF superfamily)

PHATRDRAFT_49978 - bile acid:sodium symporter (SBF superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49978
PHATRDRAFT_50098 tyrosine phosphatase (SEC14)

PHATRDRAFT_50098 - tyrosine phosphatase (SEC14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50098
PHATRDRAFT_50105

PHATRDRAFT_50105 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50105
PHATRDRAFT_50321 papain family cysteine protease containing protein (Peptidase_C1A)

PHATRDRAFT_50321 - papain family cysteine protease containing protein (Peptidase_C1A)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50321
PHATRDRAFT_50500 dihydrokaempferol 4-reductase (NADB_Rossmann superfamily)

PHATRDRAFT_50500 - dihydrokaempferol 4-reductase (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50500
PHATRDRAFT_50583

PHATRDRAFT_50583 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50583
PHATRDRAFT_51970 af262997_1nadp-dependent malic protein (PLN03129)

PHATRDRAFT_51970 - af262997_1nadp-dependent malic protein (PLN03129)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_51970
PHATRDRAFT_54360 histone h2b (PLN00158)

PHATRDRAFT_54360 - histone h2b (PLN00158)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54360
PHATRDRAFT_54643 ankyrin repeat (ANK)

PHATRDRAFT_54643 - ankyrin repeat (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54643
GO ID Go Term p-value q-value Cluster
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0000671 0.154776 Phatr_bicluster_0032
GO:0006334 nucleosome assembly 0.00266897 1 Phatr_bicluster_0032
GO:0006520 amino acid metabolism 0.00599499 1 Phatr_bicluster_0032
GO:0007283 spermatogenesis 0.0098558 1 Phatr_bicluster_0032
GO:0006510 ATP-dependent proteolysis 0.014749 1 Phatr_bicluster_0032
GO:0006094 gluconeogenesis 0.0244666 1 Phatr_bicluster_0032
GO:0006814 sodium ion transport 0.0530761 1 Phatr_bicluster_0032
GO:0006306 DNA methylation 0.0945003 1 Phatr_bicluster_0032
GO:0006508 proteolysis and peptidolysis 0.0951307 1 Phatr_bicluster_0032
GO:0006096 glycolysis 0.15974 1 Phatr_bicluster_0032
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