Phatr_bicluster_0081 Residual: 0.30
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_0081 0.30 Phaeodactylum tricornutum
Displaying 1 - 36 of 36
PHATRDRAFT_10458 diadenosine tetraphosphate hydrolase (FHIT)

PHATRDRAFT_10458 - diadenosine tetraphosphate hydrolase (FHIT)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10458
PHATRDRAFT_13254 (Evr1_Alr superfamily)

PHATRDRAFT_13254 - (Evr1_Alr superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13254
PHATRDRAFT_13987 serine racemase (Thr-dehyd)

PHATRDRAFT_13987 - serine racemase (Thr-dehyd)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_13987
PHATRDRAFT_18064 dci protein (ECH)

PHATRDRAFT_18064 - dci protein (ECH)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_18064
PHATRDRAFT_27696 isochorismatase domain containing protein (cysteine_hydrolases superfamily)

PHATRDRAFT_27696 - isochorismatase domain containing protein (cysteine_hydrolases superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_27696
PHATRDRAFT_31900 phosphatidylethanolamine n-methyltransferase (AdoMet_MTases)

PHATRDRAFT_31900 - phosphatidylethanolamine n-methyltransferase (AdoMet_MTases)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_31900
PHATRDRAFT_32173 peroxisomal targeting sequence 1 receptor (TPR)

PHATRDRAFT_32173 - peroxisomal targeting sequence 1 receptor (TPR)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32173
PHATRDRAFT_34157

PHATRDRAFT_34157 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34157
PHATRDRAFT_34168 chloroplast envelope protein translocase (cept or tic-toc) family protein (Tic22 superfamily)

PHATRDRAFT_34168 - chloroplast envelope protein translocase (cept or tic-toc) family protein (Tic22 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34168
PHATRDRAFT_34622

PHATRDRAFT_34622 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34622
PHATRDRAFT_34807

PHATRDRAFT_34807 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34807
PHATRDRAFT_34885

PHATRDRAFT_34885 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34885
PHATRDRAFT_37078 phospholipase carboxylesterase

PHATRDRAFT_35564 - phospholipase carboxylesterase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35564
PHATRDRAFT_41267

PHATRDRAFT_37078 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37078
PHATRDRAFT_42255

PHATRDRAFT_41267 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41267
PHATRDRAFT_42701 aldo keto reductase familyexpressed (Aldo_ket_red)

PHATRDRAFT_42255 - aldo keto reductase familyexpressed (Aldo_ket_red)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42255
PHATRDRAFT_43549

PHATRDRAFT_42701 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42701
PHATRDRAFT_43990 protein tyrosinereceptorf polypeptideinteracting proteinalphaisoform cra_c

PHATRDRAFT_43549 - protein tyrosinereceptorf polypeptideinteracting proteinalphaisoform cra_c

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43549
PHATRDRAFT_44277 tho complex 3 (COG2319)

PHATRDRAFT_43990 - tho complex 3 (COG2319)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43990
PHATRDRAFT_44664

PHATRDRAFT_44277 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44277
PHATRDRAFT_45784 mgc69178 protein (Peptidase_C48 superfamily)

PHATRDRAFT_44664 - mgc69178 protein (Peptidase_C48 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44664
PHATRDRAFT_46289

PHATRDRAFT_45784 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45784
PHATRDRAFT_46531 amp-activated kinase beta subunit family member (aakb-1) (E_set_AMPKbeta_like_N)

PHATRDRAFT_46289 - amp-activated kinase beta subunit family member (aakb-1) (E_set_AMPKbeta_like_N)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46289
PHATRDRAFT_46775

PHATRDRAFT_46531 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46531
PHATRDRAFT_46843 chromosome 2 open reading frameisoform cra_c

PHATRDRAFT_46775 - chromosome 2 open reading frameisoform cra_c

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46775
PHATRDRAFT_4700 (DUF111 superfamily)

PHATRDRAFT_46843 - (DUF111 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46843
PHATRDRAFT_47383 seh1-like (cerevisiae (COG2319)

PHATRDRAFT_4700 - seh1-like (cerevisiae (COG2319)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_4700
PHATRDRAFT_47574

PHATRDRAFT_47383 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47383
PHATRDRAFT_47942

PHATRDRAFT_47574 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47574
PHATRDRAFT_49077 (SCP2 superfamily)

PHATRDRAFT_47942 - (SCP2 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47942
PHATRDRAFT_49430

PHATRDRAFT_49077 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49077
PHATRDRAFT_49905 (UFD1 superfamily)

PHATRDRAFT_49430 - (UFD1 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49430
PHATRDRAFT_50303

PHATRDRAFT_49905 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49905
PHATRDRAFT_54535 atg8_phyinautophagy-related protein 8 precursor (autophagy-related ubiquitin-like modifier atg8) (GABARAP)

PHATRDRAFT_50303 - atg8_phyinautophagy-related protein 8 precursor (autophagy-related ubiquitin-like modifier atg8) (GABARAP)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50303
PHATRDRAFT_6626 methylmalonate-semialdehyde dehydrogenase (ALDH-SF superfamily)

PHATRDRAFT_54535 - methylmalonate-semialdehyde dehydrogenase (ALDH-SF superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54535

PHATRDRAFT_6626 - (DUF3172 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_6626
GO ID Go Term p-value q-value Cluster
GO:0008152 metabolism 0.00642582 1 Phatr_bicluster_0081
GO:0006979 response to oxidative stress 0.0350628 1 Phatr_bicluster_0081
GO:0006520 amino acid metabolism 0.0350628 1 Phatr_bicluster_0081
GO:0006508 proteolysis and peptidolysis 0.289429 1 Phatr_bicluster_0081
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