Phatr_bicluster_0037 Residual: 0.32
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_0037 0.32 Phaeodactylum tricornutum
Displaying 1 - 33 of 33
PHATRDRAFT_11273 aldo keto reductase-like protein (Aldo_ket_red)

PHATRDRAFT_11273 - aldo keto reductase-like protein (Aldo_ket_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11273
PHATRDRAFT_15326 (Methyltransf_16 superfamily)

PHATRDRAFT_15326 - (Methyltransf_16 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_15326
PHATRDRAFT_1719 small gtp-binding protein domain (GTP_HflX)

PHATRDRAFT_1719 - small gtp-binding protein domain (GTP_HflX)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_1719
PHATRDRAFT_18693 (ABCC_MRP_domain2)

PHATRDRAFT_18693 - (ABCC_MRP_domain2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18693
PHATRDRAFT_20082 neutral alkaline nonlysosomal ceramidase family protein (Ceramidase_alk)

PHATRDRAFT_20082 - neutral alkaline nonlysosomal ceramidase family protein (Ceramidase_alk)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_20082
PHATRDRAFT_21456 set domain containingexpressed (SET)

PHATRDRAFT_21456 - set domain containingexpressed (SET)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_21456
PHATRDRAFT_22411 short-chain dehydrogenase reductase sdr (SDR_c)

PHATRDRAFT_22411 - short-chain dehydrogenase reductase sdr (SDR_c)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_22411
PHATRDRAFT_23646 at1g07510 f22g5_9 (FtsH_fam)

PHATRDRAFT_23646 - at1g07510 f22g5_9 (FtsH_fam)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23646
PHATRDRAFT_33141

PHATRDRAFT_33141 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_33141
PHATRDRAFT_40375

PHATRDRAFT_40375 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_40375
PHATRDRAFT_43068 small nuclear ribonucleoparticle-associated protein (Sm_like superfamily)

PHATRDRAFT_43068 - small nuclear ribonucleoparticle-associated protein (Sm_like superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43068
PHATRDRAFT_43295 loc779625 protein (Hydrolase_4 superfamily)

PHATRDRAFT_43295 - loc779625 protein (Hydrolase_4 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43295
PHATRDRAFT_43324

PHATRDRAFT_43324 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43324
PHATRDRAFT_43508

PHATRDRAFT_43508 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43508
PHATRDRAFT_44268

PHATRDRAFT_44268 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44268
PHATRDRAFT_45361 steroid reductase (DUF1295 superfamily)

PHATRDRAFT_45361 - steroid reductase (DUF1295 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45361
PHATRDRAFT_45913 protein kinase xa21

PHATRDRAFT_45913 - protein kinase xa21

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45913
PHATRDRAFT_45958 major facilitator superfamily (DUF866 superfamily)

PHATRDRAFT_45958 - major facilitator superfamily (DUF866 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45958
PHATRDRAFT_47080 mgc148652 protein (TB2_DP1_HVA22 superfamily)

PHATRDRAFT_47080 - mgc148652 protein (TB2_DP1_HVA22 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47080
PHATRDRAFT_47331

PHATRDRAFT_47331 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47331
PHATRDRAFT_47853 (BaeS)

PHATRDRAFT_47853 - (BaeS)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47853
PHATRDRAFT_47957 (SRPBCC superfamily)

PHATRDRAFT_47957 - (SRPBCC superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47957
PHATRDRAFT_48238

PHATRDRAFT_48238 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48238
PHATRDRAFT_48390 (DUF3608 superfamily)

PHATRDRAFT_48390 - (DUF3608 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48390
PHATRDRAFT_48616

PHATRDRAFT_48616 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48616
PHATRDRAFT_48766 possible oxidoreductase (Flavin_Reduct)

PHATRDRAFT_48766 - possible oxidoreductase (Flavin_Reduct)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48766
PHATRDRAFT_49367

PHATRDRAFT_49367 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49367
PHATRDRAFT_49409 prolyl 4-hydroxylase alphaexpressed (2OG-FeII_Oxy_3 superfamily)

PHATRDRAFT_49409 - prolyl 4-hydroxylase alphaexpressed (2OG-FeII_Oxy_3 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49409
PHATRDRAFT_49580 (CIA30 superfamily)

PHATRDRAFT_49580 - (CIA30 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49580
PHATRDRAFT_50115 isoform cra_b (GYF)

PHATRDRAFT_50115 - isoform cra_b (GYF)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50115
PHATRDRAFT_50150

PHATRDRAFT_50150 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50150
PHATRDRAFT_6606 (DUF1279 superfamily)

PHATRDRAFT_6606 - (DUF1279 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6606
PHATRDRAFT_8045 peptidyl-prolyl cis-trans isomerase (FKBP_C)

PHATRDRAFT_8045 - peptidyl-prolyl cis-trans isomerase (FKBP_C)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_8045
GO ID Go Term p-value q-value Cluster
GO:0006810 transport 0.0431167 1 Phatr_bicluster_0037
GO:0030163 protein catabolism 0.0452816 1 Phatr_bicluster_0037
GO:0016310 phosphorylation 0.057292 1 Phatr_bicluster_0037
GO:0006397 mRNA processing 0.0924756 1 Phatr_bicluster_0037
GO:0000160 two-component signal transduction system (phosphorelay) 0.103926 1 Phatr_bicluster_0037
GO:0007018 microtubule-based movement 0.118982 1 Phatr_bicluster_0037
GO:0019538 protein metabolism 0.14112 1 Phatr_bicluster_0037
GO:0007165 signal transduction 0.180354 1 Phatr_bicluster_0037
GO:0006457 protein folding 0.393149 1 Phatr_bicluster_0037
GO:0006412 protein biosynthesis 0.499011 1 Phatr_bicluster_0037
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