Phatr_bicluster_0099 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_0099 0.44 Phaeodactylum tricornutum
Displaying 1 - 56 of 56
PHATRDRAFT_13230 helicase domain protein (HA)

PHATRDRAFT_13230 - helicase domain protein (HA)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13230
PHATRDRAFT_1813 ammonium transporter (Ammonium_transp superfamily)

PHATRDRAFT_1813 - ammonium transporter (Ammonium_transp superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1813
PHATRDRAFT_33648 lipopolysaccharide a protein (CAP10 superfamily)

PHATRDRAFT_33648 - lipopolysaccharide a protein (CAP10 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33648
PHATRDRAFT_33763

PHATRDRAFT_33763 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33763
PHATRDRAFT_34415 heat shock transcription factor 4 isoform 2 (HSF_DNA-bind)

PHATRDRAFT_34415 - heat shock transcription factor 4 isoform 2 (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34415
PHATRDRAFT_34549

PHATRDRAFT_34549 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34549
PHATRDRAFT_35518

PHATRDRAFT_35098 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35098
PHATRDRAFT_36581 transposonen spm sub-expressed

PHATRDRAFT_35518 - transposonen spm sub-expressed

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35518
PHATRDRAFT_37892 (Bestrophin superfamily)

PHATRDRAFT_36581 - (Bestrophin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36581
PHATRDRAFT_37989

PHATRDRAFT_37892 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37892
PHATRDRAFT_38369

PHATRDRAFT_37989 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37989
PHATRDRAFT_38600 tpr repeats

PHATRDRAFT_38369 - tpr repeats

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38369
PHATRDRAFT_38934 adhesion lipoprotein (Fasciclin)

PHATRDRAFT_38600 - adhesion lipoprotein (Fasciclin)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38600
PHATRDRAFT_39159

PHATRDRAFT_38934 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_38934
PHATRDRAFT_39265

PHATRDRAFT_39159 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39159
PHATRDRAFT_40020

PHATRDRAFT_39265 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_39265
PHATRDRAFT_40325

PHATRDRAFT_40020 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40020
PHATRDRAFT_40447 (SMK-1 superfamily)

PHATRDRAFT_40325 - (SMK-1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40325
PHATRDRAFT_40510 protein disulfide isomerase-like protein 3 (Thioredoxin_like superfamily)

PHATRDRAFT_40447 - protein disulfide isomerase-like protein 3 (Thioredoxin_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40447
PHATRDRAFT_40749 (Glyco_tranf_GTA_type superfamily)

PHATRDRAFT_40510 - (Glyco_tranf_GTA_type superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40510
PHATRDRAFT_40874 exostosin family protein (Exostosin superfamily)

PHATRDRAFT_40749 - exostosin family protein (Exostosin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40749
PHATRDRAFT_41156

PHATRDRAFT_40874 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40874
PHATRDRAFT_41302

PHATRDRAFT_41156 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41156
PHATRDRAFT_41350 probable cell surface glycoprotein

PHATRDRAFT_41302 - probable cell surface glycoprotein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41302
PHATRDRAFT_42576

PHATRDRAFT_41350 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41350
PHATRDRAFT_42685 hmg family member (hmg-4) (HMGB-UBF_HMG-box)

PHATRDRAFT_42576 - hmg family member (hmg-4) (HMGB-UBF_HMG-box)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42576
PHATRDRAFT_42955 ipt tig domain containing protein

PHATRDRAFT_42685 - ipt tig domain containing protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42685
PHATRDRAFT_43925 viral a-type inclusion (Smc)

PHATRDRAFT_42955 - viral a-type inclusion (Smc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42955
PHATRDRAFT_44265

PHATRDRAFT_43925 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43925
PHATRDRAFT_44293

PHATRDRAFT_44265 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44265
PHATRDRAFT_44440

PHATRDRAFT_44293 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44293
PHATRDRAFT_44607

PHATRDRAFT_44440 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44440
PHATRDRAFT_44759

PHATRDRAFT_44607 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44607
PHATRDRAFT_44890 chitin synthase (Glyco_tranf_GTA_type superfamily)

PHATRDRAFT_44759 - chitin synthase (Glyco_tranf_GTA_type superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44759
PHATRDRAFT_45143

PHATRDRAFT_44890 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44890
PHATRDRAFT_45159 cog4325: membrane protein (DUF2254)

PHATRDRAFT_45143 - cog4325: membrane protein (DUF2254)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45143
PHATRDRAFT_45241

PHATRDRAFT_45159 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45159
PHATRDRAFT_45737

PHATRDRAFT_45241 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45241
PHATRDRAFT_45771 secreted protein

PHATRDRAFT_45737 - secreted protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45737
PHATRDRAFT_47547

PHATRDRAFT_45771 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45771
PHATRDRAFT_48438

PHATRDRAFT_47547 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47547
PHATRDRAFT_48870

PHATRDRAFT_48438 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48438
PHATRDRAFT_48943

PHATRDRAFT_48870 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48870
PHATRDRAFT_49576

PHATRDRAFT_48943 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48943
PHATRDRAFT_49605 (Glyco_tranf_GTA_type superfamily)

PHATRDRAFT_49576 - (Glyco_tranf_GTA_type superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49576
PHATRDRAFT_49625

PHATRDRAFT_49605 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49605
PHATRDRAFT_49629

PHATRDRAFT_49625 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49625
PHATRDRAFT_49640

PHATRDRAFT_49629 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49629
PHATRDRAFT_49854

PHATRDRAFT_49640 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49640
PHATRDRAFT_49918 (NADB_Rossmann superfamily)

PHATRDRAFT_49854 - (NADB_Rossmann superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49854
PHATRDRAFT_49986 m6 (immune inhibitor a) family (Peptidase_M6 superfamily)

PHATRDRAFT_49918 - m6 (immune inhibitor a) family (Peptidase_M6 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49918
PHATRDRAFT_50153

PHATRDRAFT_49986 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49986
PHATRDRAFT_54105 extracellular matrix protein st310

PHATRDRAFT_50153 - extracellular matrix protein st310

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50153
PHATRDRAFT_5465 (Glyoxalase_3)

PHATRDRAFT_54105 - (Glyoxalase_3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54105
PHATRDRAFT_944 ring finger and chy zinc finger domain containing 1 (zf-CHY)

PHATRDRAFT_5465 - ring finger and chy zinc finger domain containing 1 (zf-CHY)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_5465

PHATRDRAFT_944 - loc496054 protein (MORN superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_944
GO ID Go Term p-value q-value Cluster
GO:0007155 cell adhesion 0.0222757 1 Phatr_bicluster_0099
GO:0006355 regulation of transcription, DNA-dependent 0.0510752 1 Phatr_bicluster_0099
GO:0016567 protein ubiquitination 0.118111 1 Phatr_bicluster_0099
GO:0006468 protein amino acid phosphorylation 0.262204 1 Phatr_bicluster_0099
GO:0006810 transport 0.287164 1 Phatr_bicluster_0099
GO:0006118 electron transport 0.33492 1 Phatr_bicluster_0099
Log in to post comments