Phatr_bicluster_0111 Residual: 0.46
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_0111 0.46 Phaeodactylum tricornutum
Displaying 1 - 48 of 48
PHATRDRAFT_14553 dual-specificity tyrosine--phosphorylation regulated kinaseisoform cra_e (S_TKc)

PHATRDRAFT_14553 - dual-specificity tyrosine--phosphorylation regulated kinaseisoform cra_e (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14553
PHATRDRAFT_15565 rna exonuclease 4 (DnaQ_like_exo superfamily)

PHATRDRAFT_15565 - rna exonuclease 4 (DnaQ_like_exo superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15565
PHATRDRAFT_16341 solute carrier family 35 (UAA)

PHATRDRAFT_16341 - solute carrier family 35 (UAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_16341
PHATRDRAFT_22559 disease resistance protein

PHATRDRAFT_22559 - disease resistance protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22559
PHATRDRAFT_2593 (PLN00113)

PHATRDRAFT_2593 - (PLN00113)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_2593
PHATRDRAFT_31693

PHATRDRAFT_31693 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31693
PHATRDRAFT_34985

PHATRDRAFT_34985 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34985
PHATRDRAFT_35692 (DUF501)

PHATRDRAFT_35692 - (DUF501)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35692
PHATRDRAFT_36162 hsf-type dna-binding domain containing protein

PHATRDRAFT_36162 - hsf-type dna-binding domain containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36162
PHATRDRAFT_36184 (Periplasmic_Binding_Protein_Type_1 superfamily)

PHATRDRAFT_36184 - (Periplasmic_Binding_Protein_Type_1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36184
PHATRDRAFT_36547

PHATRDRAFT_36547 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36547
PHATRDRAFT_39253

PHATRDRAFT_39253 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39253
PHATRDRAFT_40792 grip1 associated proteinisoform cra_a

PHATRDRAFT_40792 - grip1 associated proteinisoform cra_a

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40792
PHATRDRAFT_42434 aaa-type atpase family protein ankyrin repeat family protein (AAA)

PHATRDRAFT_42434 - aaa-type atpase family protein ankyrin repeat family protein (AAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42434
PHATRDRAFT_42588 major surface like glycoprotein (Peptidase_M8 superfamily)

PHATRDRAFT_42588 - major surface like glycoprotein (Peptidase_M8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42588
PHATRDRAFT_42809 tpr repeat:nb-arc:peptidasecaspase catalytic subunit p20:tetratricopeptide tpr_3:tetratricopeptide tpr_4:tetratricopeptide tpr_4 (TPR_12)

PHATRDRAFT_42809 - tpr repeat:nb-arc:peptidasecaspase catalytic subunit p20:tetratricopeptide tpr_3:tetratricopeptide tpr_4:tetratricopeptide tpr_4 (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42809
PHATRDRAFT_44023 (DENN)

PHATRDRAFT_44023 - (DENN)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44023
PHATRDRAFT_44116 tpr repeat:nb-arc:peptidasecaspase catalytic subunit p20:tetratricopeptide tpr_3:tetratricopeptide tpr_4:tetratricopeptide tpr_4 (TPR_12)

PHATRDRAFT_44116 - tpr repeat:nb-arc:peptidasecaspase catalytic subunit p20:tetratricopeptide tpr_3:tetratricopeptide tpr_4:tetratricopeptide tpr_4 (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44116
PHATRDRAFT_44629 lipopolysaccharide a protein (CAP10 superfamily)

PHATRDRAFT_44629 - lipopolysaccharide a protein (CAP10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44629
PHATRDRAFT_44975 (Glyco_transf_64 superfamily)

PHATRDRAFT_44975 - (Glyco_transf_64 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44975
PHATRDRAFT_45242

PHATRDRAFT_45242 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45242
PHATRDRAFT_45644

PHATRDRAFT_45644 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45644
PHATRDRAFT_45729

PHATRDRAFT_45729 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45729
PHATRDRAFT_45748 tkl family protein kinase (S_TKc)

PHATRDRAFT_45748 - tkl family protein kinase (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45748
PHATRDRAFT_45751 bnr repeat domain protein

PHATRDRAFT_45751 - bnr repeat domain protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45751
PHATRDRAFT_46087 fibronectin type iii domain protein (Peptidases_S53_like)

PHATRDRAFT_46087 - fibronectin type iii domain protein (Peptidases_S53_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46087
PHATRDRAFT_46216

PHATRDRAFT_46216 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46216
PHATRDRAFT_46933

PHATRDRAFT_46933 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46933
PHATRDRAFT_47200

PHATRDRAFT_47200 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47200
PHATRDRAFT_47289

PHATRDRAFT_47289 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47289
PHATRDRAFT_47698 serine threonine protein kinase (PKc)

PHATRDRAFT_47698 - serine threonine protein kinase (PKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47698
PHATRDRAFT_47849

PHATRDRAFT_47849 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47849
PHATRDRAFT_48262 peptidase s8 andsedolisin (Peptidases_S8_Subtilisin_subset)

PHATRDRAFT_48262 - peptidase s8 andsedolisin (Peptidases_S8_Subtilisin_subset)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48262
PHATRDRAFT_48598

PHATRDRAFT_48598 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48598
PHATRDRAFT_48623 kinesin motor domain containingexpressed

PHATRDRAFT_48623 - kinesin motor domain containingexpressed

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48623
PHATRDRAFT_49073 (Aa_trans superfamily)

PHATRDRAFT_49073 - (Aa_trans superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49073
PHATRDRAFT_49102 (TPR_12)

PHATRDRAFT_49102 - (TPR_12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49102
PHATRDRAFT_49291

PHATRDRAFT_49276 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49276
PHATRDRAFT_4937 sh2 domain-containing protein (PKc_like superfamily)

PHATRDRAFT_49291 - sh2 domain-containing protein (PKc_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49291
PHATRDRAFT_49426 spore formation protein (AAA)

PHATRDRAFT_4937 - spore formation protein (AAA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4937
PHATRDRAFT_49671 ankyrin repeat protein (ANK)

PHATRDRAFT_49426 - ankyrin repeat protein (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49426
PHATRDRAFT_50632 disease resistance protein

PHATRDRAFT_49671 - disease resistance protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49671
PHATRDRAFT_52304 dot1_gibze histone-lysine n-h3 lysine-79 specific (histone h3-k79 methyltransferase) (h3-k79-hmtase) (DOT1 superfamily)

PHATRDRAFT_50632 - dot1_gibze histone-lysine n-h3 lysine-79 specific (histone h3-k79 methyltransferase) (h3-k79-hmtase) (DOT1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50632
PHATRDRAFT_52603 epsilon frustilin

PHATRDRAFT_52304 - epsilon frustilin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52304
PHATRDRAFT_54026 phosphoacetylglucosamine mutase (PLN02895)

PHATRDRAFT_52603 - phosphoacetylglucosamine mutase (PLN02895)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52603
PHATRDRAFT_55128

PHATRDRAFT_54026 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54026
PHATRDRAFT_5608 mate efflux family protein (MATE_like superfamily)

PHATRDRAFT_55128 - mate efflux family protein (MATE_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55128

PHATRDRAFT_5608 - mgc52831 protein (UBCc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5608
GO ID Go Term p-value q-value Cluster
GO:0007155 cell adhesion 0.00157814 1 Phatr_bicluster_0111
GO:0006468 protein amino acid phosphorylation 0.00738542 1 Phatr_bicluster_0111
GO:0007160 cell-matrix adhesion 0.014015 1 Phatr_bicluster_0111
GO:0006334 nucleosome assembly 0.0726248 1 Phatr_bicluster_0111
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0769938 1 Phatr_bicluster_0111
GO:0006508 proteolysis and peptidolysis 0.0841501 1 Phatr_bicluster_0111
GO:0006979 response to oxidative stress 0.107035 1 Phatr_bicluster_0111
GO:0006865 amino acid transport 0.123783 1 Phatr_bicluster_0111
GO:0015986 ATP synthesis coupled proton transport 0.160385 1 Phatr_bicluster_0111
GO:0006512 ubiquitin cycle 0.164361 1 Phatr_bicluster_0111
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