Phatr_bicluster_0029 Residual: 0.45
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_0029 0.45 Phaeodactylum tricornutum
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Displaying 1 - 28 of 28
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PHATRDRAFT_10571 cyclophilin b (cyclophilin superfamily)

PHATRDRAFT_10571 - cyclophilin b (cyclophilin superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10571
PHATRDRAFT_10872 ydj7_schpo uncharacterized protein

PHATRDRAFT_10872 - ydj7_schpo uncharacterized protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_10872
PHATRDRAFT_23924 glucose-6-phosphate isomerase (pgi)

PHATRDRAFT_23924 - glucose-6-phosphate isomerase (pgi)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_23924
PHATRDRAFT_34650

PHATRDRAFT_34650 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_34650
PHATRDRAFT_35520

PHATRDRAFT_35520 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35520
PHATRDRAFT_36115

PHATRDRAFT_36115 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36115
PHATRDRAFT_36726 glycolipid transfer protein (GLTP superfamily)

PHATRDRAFT_36726 - glycolipid transfer protein (GLTP superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36726
PHATRDRAFT_36927 (RRP14)

PHATRDRAFT_36927 - (RRP14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36927
PHATRDRAFT_37572 phosphoglycerate mutase (HP_PGM_like)

PHATRDRAFT_37572 - phosphoglycerate mutase (HP_PGM_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37572
PHATRDRAFT_37689

PHATRDRAFT_37689 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37689
PHATRDRAFT_41548

PHATRDRAFT_41548 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_41548
PHATRDRAFT_44348

PHATRDRAFT_44348 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44348
PHATRDRAFT_45389 hsf-type dna-binding domain containing protein (HSF_DNA-bind)

PHATRDRAFT_45389 - hsf-type dna-binding domain containing protein (HSF_DNA-bind)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45389
PHATRDRAFT_45477

PHATRDRAFT_45477 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45477
PHATRDRAFT_46947

PHATRDRAFT_46947 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46947
PHATRDRAFT_47008

PHATRDRAFT_47008 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47008
PHATRDRAFT_47530

PHATRDRAFT_47530 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47530
PHATRDRAFT_47757

PHATRDRAFT_47757 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47757
PHATRDRAFT_48263

PHATRDRAFT_48263 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48263
PHATRDRAFT_48420

PHATRDRAFT_48420 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48420
PHATRDRAFT_48698 golgi integral membrane protein (CLN3 superfamily)

PHATRDRAFT_48698 - golgi integral membrane protein (CLN3 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48698
PHATRDRAFT_49059 chymotrypsin inhibitor-2 (potato_inhibit)

PHATRDRAFT_49059 - chymotrypsin inhibitor-2 (potato_inhibit)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49059
PHATRDRAFT_49607

PHATRDRAFT_49607 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49607
PHATRDRAFT_49992

PHATRDRAFT_49992 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49992
PHATRDRAFT_50236 af178952_1voltage-dependent anion channel protein 2 (Porin3 superfamily)

PHATRDRAFT_50236 - af178952_1voltage-dependent anion channel protein 2 (Porin3 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_50236
PHATRDRAFT_52058 myosin subfamily xi heavy chain (MYSc)

PHATRDRAFT_52058 - myosin subfamily xi heavy chain (MYSc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_52058
PHATRDRAFT_54064 pentatricopeptiderepeat-containing protein (PPR_2)

PHATRDRAFT_54064 - pentatricopeptiderepeat-containing protein (PPR_2)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54064

PHATRDRAFT_9446 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_9446
GO ID Go Term p-value q-value Cluster
GO:0009611 response to wounding 0.00246975 1 Phatr_bicluster_0029
GO:0006094 gluconeogenesis 0.0122939 1 Phatr_bicluster_0029
GO:0006820 anion transport 0.0292769 1 Phatr_bicluster_0029
GO:0006260 DNA replication 0.0624567 1 Phatr_bicluster_0029
GO:0006281 DNA repair 0.080955 1 Phatr_bicluster_0029
GO:0006096 glycolysis 0.083244 1 Phatr_bicluster_0029
GO:0006310 DNA recombination 0.0878067 1 Phatr_bicluster_0029
GO:0006457 protein folding 0.254387 1 Phatr_bicluster_0029
GO:0006355 regulation of transcription, DNA-dependent 0.426896 1 Phatr_bicluster_0029
GO:0008152 metabolism 0.529843 1 Phatr_bicluster_0029
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