Phatr_bicluster_0092 Residual: 0.51
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_0092 0.51 Phaeodactylum tricornutum
Displaying 1 - 55 of 55
PHATRDRAFT_22453 dass family transporter: sodium ion sulfate (ArsB_NhaD_permease superfamily)

PHATRDRAFT_22453 - dass family transporter: sodium ion sulfate (ArsB_NhaD_permease superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22453
PHATRDRAFT_33107 (Peptidase_M11 superfamily)

PHATRDRAFT_33107 - (Peptidase_M11 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33107
PHATRDRAFT_36595

PHATRDRAFT_36595 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36595
PHATRDRAFT_37401

PHATRDRAFT_37401 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37401
PHATRDRAFT_37811 (PEX11 superfamily)

PHATRDRAFT_37811 - (PEX11 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37811
PHATRDRAFT_37898

PHATRDRAFT_37898 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37898
PHATRDRAFT_38097 (HMGB-UBF_HMG-box)

PHATRDRAFT_38097 - (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38097
PHATRDRAFT_38100 chondroitin sulfate proteoglycan 2

PHATRDRAFT_38100 - chondroitin sulfate proteoglycan 2

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38100
PHATRDRAFT_38213

PHATRDRAFT_38213 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38213
PHATRDRAFT_38361

PHATRDRAFT_38361 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38361
PHATRDRAFT_38549 guanylyl cyclase family member (gcy-28) (CHD)

PHATRDRAFT_38549 - guanylyl cyclase family member (gcy-28) (CHD)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38549
PHATRDRAFT_38589

PHATRDRAFT_38589 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38589
PHATRDRAFT_38802

PHATRDRAFT_38802 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38802
PHATRDRAFT_39057

PHATRDRAFT_39057 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39057
PHATRDRAFT_39167

PHATRDRAFT_39167 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39167
PHATRDRAFT_39507

PHATRDRAFT_39507 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39507
PHATRDRAFT_39785 heat shock transcription factor 4 isoform 1 (HSF_DNA-bind)

PHATRDRAFT_39785 - heat shock transcription factor 4 isoform 1 (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39785
PHATRDRAFT_39880 high mobility group protein 4 (hmg-4) (high mobility group protein 2a) (hmg-2a) (HMGB-UBF_HMG-box)

PHATRDRAFT_39880 - high mobility group protein 4 (hmg-4) (high mobility group protein 2a) (hmg-2a) (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39880
PHATRDRAFT_40189

PHATRDRAFT_40189 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40189
PHATRDRAFT_40473 copia protein (gag-int-pol protein)

PHATRDRAFT_40473 - copia protein (gag-int-pol protein)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40473
PHATRDRAFT_40475

PHATRDRAFT_40475 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40475
PHATRDRAFT_40896 (ANK)

PHATRDRAFT_40896 - (ANK)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40896
PHATRDRAFT_41130 cog0398: uncharacterized conserved protein (COG0398)

PHATRDRAFT_41130 - cog0398: uncharacterized conserved protein (COG0398)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41130
PHATRDRAFT_41506

PHATRDRAFT_41506 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41506
PHATRDRAFT_41508 cobalamin synthesis protein p47k family protein (COG0523)

PHATRDRAFT_41508 - cobalamin synthesis protein p47k family protein (COG0523)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41508
PHATRDRAFT_46116

PHATRDRAFT_46116 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46116
PHATRDRAFT_47550 sarcosine oxidase (NAD_binding_8 superfamily)

PHATRDRAFT_47550 - sarcosine oxidase (NAD_binding_8 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47550
PHATRDRAFT_47560 iesterase family member (pde-4)

PHATRDRAFT_47560 - iesterase family member (pde-4)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47560
PHATRDRAFT_47737 arginine serine-rich splicing factor (RRM_Srp1p_AtRSp31_like)

PHATRDRAFT_47737 - arginine serine-rich splicing factor (RRM_Srp1p_AtRSp31_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47737
PHATRDRAFT_47923 (Exostosin)

PHATRDRAFT_47923 - (Exostosin)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47923
PHATRDRAFT_47958 2fe-2s iron-sulfur cluster

PHATRDRAFT_47958 - 2fe-2s iron-sulfur cluster

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47958
PHATRDRAFT_47987 proline rich protein

PHATRDRAFT_47987 - proline rich protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47987
PHATRDRAFT_48218

PHATRDRAFT_48218 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48218
PHATRDRAFT_48291 calcium-dependent protein kinase (EFh)

PHATRDRAFT_48291 - calcium-dependent protein kinase (EFh)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48291
PHATRDRAFT_48394 heat shock protein (HSF_DNA-bind)

PHATRDRAFT_48394 - heat shock protein (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48394
PHATRDRAFT_48687

PHATRDRAFT_48687 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48687
PHATRDRAFT_48701 bzip transcription factor family protein

PHATRDRAFT_48701 - bzip transcription factor family protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48701
PHATRDRAFT_48806 start domain-containing protein (DUF1336 superfamily)

PHATRDRAFT_48806 - start domain-containing protein (DUF1336 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48806
PHATRDRAFT_48881 glucosaminyl (n-acetyl) transferasecore 2

PHATRDRAFT_48881 - glucosaminyl (n-acetyl) transferasecore 2

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48881
PHATRDRAFT_49025 mgc157129 protein (STKc_MAK_like)

PHATRDRAFT_49025 - mgc157129 protein (STKc_MAK_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49025
PHATRDRAFT_49105

PHATRDRAFT_49105 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49105
PHATRDRAFT_49215 (vWFA superfamily)

PHATRDRAFT_49215 - (vWFA superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49215
PHATRDRAFT_49427

PHATRDRAFT_49427 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49427
PHATRDRAFT_49551

PHATRDRAFT_49551 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49551
PHATRDRAFT_49599

PHATRDRAFT_49599 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49599
PHATRDRAFT_49899

PHATRDRAFT_49899 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49899
PHATRDRAFT_49952 cell surface flocculin

PHATRDRAFT_49952 - cell surface flocculin

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49952
PHATRDRAFT_49988 domain containing (TraB superfamily)

PHATRDRAFT_49988 - domain containing (TraB superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49988
PHATRDRAFT_50299 novel protease (XendoU)

PHATRDRAFT_50299 - novel protease (XendoU)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50299
PHATRDRAFT_50390

PHATRDRAFT_50390 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50390
PHATRDRAFT_50597

PHATRDRAFT_50597 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50597
PHATRDRAFT_52648 beta-ketoacyl synthase (PRK07967)

PHATRDRAFT_52648 - beta-ketoacyl synthase (PRK07967)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52648
PHATRDRAFT_54749

PHATRDRAFT_54749 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54749
PHATRDRAFT_54954 calmodulin-domain protein kinase cdpk isoform 9 (EFh)

PHATRDRAFT_54954 - calmodulin-domain protein kinase cdpk isoform 9 (EFh)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54954
PHATRDRAFT_55029 carbonate dehydratase (alpha_CA)

PHATRDRAFT_55029 - carbonate dehydratase (alpha_CA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_55029
GO ID Go Term p-value q-value Cluster
GO:0006355 regulation of transcription, DNA-dependent 0.0000775 0.178669 Phatr_bicluster_0092
GO:0005978 glycogen biosynthesis 0.00739642 1 Phatr_bicluster_0092
GO:0009190 cyclic nucleotide biosynthesis 0.0612637 1 Phatr_bicluster_0092
GO:0006813 potassium ion transport 0.0717043 1 Phatr_bicluster_0092
GO:0006979 response to oxidative stress 0.0854566 1 Phatr_bicluster_0092
GO:0007242 intracellular signaling cascade 0.145022 1 Phatr_bicluster_0092
GO:0007165 signal transduction 0.160913 1 Phatr_bicluster_0092
GO:0006508 proteolysis and peptidolysis 0.199918 1 Phatr_bicluster_0092
GO:0006468 protein amino acid phosphorylation 0.479142 1 Phatr_bicluster_0092
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