Phatr_bicluster_0105 Residual: 0.29
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_0105 0.29 Phaeodactylum tricornutum
Displaying 1 - 23 of 23
PHATRDRAFT_11014 acyl-dehydrogenase (DUF1974 superfamily)

PHATRDRAFT_11014 - acyl-dehydrogenase (DUF1974 superfamily)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_11014
PHATRDRAFT_12373 mgc114925 protein (ETF_alpha)

PHATRDRAFT_12373 - mgc114925 protein (ETF_alpha)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_12373
PHATRDRAFT_14457 mgc107891 protein (rpa1)

PHATRDRAFT_14457 - mgc107891 protein (rpa1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_14457
PHATRDRAFT_17427 alcohol dehydrogenase family protein (adh_III_F_hyde)

PHATRDRAFT_17427 - alcohol dehydrogenase family protein (adh_III_F_hyde)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_17427
PHATRDRAFT_28068 mitochondrial trifunctionalbeta subunit (fadI)

PHATRDRAFT_28068 - mitochondrial trifunctionalbeta subunit (fadI)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_28068
PHATRDRAFT_32830 ribonucleaselarge subunit (RNase_HII_eukaryota_like)

PHATRDRAFT_32830 - ribonucleaselarge subunit (RNase_HII_eukaryota_like)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_32830
PHATRDRAFT_35463 protein kinase p46g22 (S_TKc)

PHATRDRAFT_35463 - protein kinase p46g22 (S_TKc)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_35463
PHATRDRAFT_36105

PHATRDRAFT_36105 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_36105
PHATRDRAFT_37270

PHATRDRAFT_37270 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_37270
PHATRDRAFT_42534

PHATRDRAFT_42534 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_42534
PHATRDRAFT_43398 glutathione reductase

PHATRDRAFT_43398 - glutathione reductase

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43398
PHATRDRAFT_43635

PHATRDRAFT_43635 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43635
PHATRDRAFT_43943 far-red impaired response protein

PHATRDRAFT_43943 - far-red impaired response protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_43943
PHATRDRAFT_44820

PHATRDRAFT_44820 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_44820
PHATRDRAFT_45811 (SEC14)

PHATRDRAFT_45811 - (SEC14)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45811
PHATRDRAFT_45947 acetyl-coenzyme a acyltransferase 2 (mitochondrial 3-oxoacyl-coenzyme a thiolase) (PRK05790)

PHATRDRAFT_45947 - acetyl-coenzyme a acyltransferase 2 (mitochondrial 3-oxoacyl-coenzyme a thiolase) (PRK05790)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_45947
PHATRDRAFT_46606 membrane protein

PHATRDRAFT_46606 - membrane protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46606
PHATRDRAFT_46793 cyst wall protein 1

PHATRDRAFT_46793 - cyst wall protein 1

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_46793
PHATRDRAFT_47263

PHATRDRAFT_47263 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_47263
PHATRDRAFT_48922 loc398088 protein (Cnd3)

PHATRDRAFT_48922 - loc398088 protein (Cnd3)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_48922
PHATRDRAFT_49066

PHATRDRAFT_49066 -

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_49066
PHATRDRAFT_53929 mevalonate kinase (ERG12)

PHATRDRAFT_53929 - mevalonate kinase (ERG12)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_53929
PHATRDRAFT_54306 microtubule-associated protein eb1-like protein (EB1)

PHATRDRAFT_54306 - microtubule-associated protein eb1-like protein (EB1)

GO Terms:

NA

CD Domains:

Go To Gene Page:

PHATRDRAFT_54306
GO ID Go Term p-value q-value Cluster
GO:0016070 RNA metabolism 0.00123487 1 Phatr_bicluster_0105
GO:0006118 electron transport 0.0284292 1 Phatr_bicluster_0105
GO:0006260 DNA replication 0.0317125 1 Phatr_bicluster_0105
GO:0006468 protein amino acid phosphorylation 0.195192 1 Phatr_bicluster_0105
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