Thaps_bicluster_0211 Residual: 0.43
Thalassiosira pseudonana

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
Thaps_bicluster_0211 0.43 Thalassiosira pseudonana
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Displaying 1 - 25 of 25
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11018 hypothetical protein

11018 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11018
11929 hypothetical protein

11929 - hypothetical protein

GO Terms:

GO:0003918

CD Domains:

Go To Gene Page:

11929
12122 hypothetical protein

12122 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12122
1505 hypothetical protein

1505 - hypothetical protein

GO Terms:

GO:0006508, GO:0008233

CD Domains:

Go To Gene Page:

1505
16503 AAA

16503 - AAA

GO Terms:

GO:0000166, GO:0017111, GO:0005524

CD Domains:

Go To Gene Page:

16503
21374 Lactonase

21374 - Lactonase

GO Terms:

NA

CD Domains:

Go To Gene Page:

21374
21554 hypothetical protein

21554 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

21554
24585 Syntaxin-6_N superfamily

24585 - Syntaxin-6_N superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

24585
24867 hypothetical protein

24867 - hypothetical protein

GO Terms:

GO:0003700, GO:0005667, GO:0006352, GO:0006355, GO:0008270

CD Domains:

Go To Gene Page:

24867
25267 hypothetical protein

25267 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25267
25771 hypothetical protein

25771 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25771
261566 Bud13

261566 - Bud13

GO Terms:

NA

CD Domains:

Go To Gene Page:

261566
264821 PKc_like superfamily

264821 - PKc_like superfamily

GO Terms:

GO:0004672, GO:0005524, GO:0006468, GO:0004713, GO:0004674

CD Domains:

Go To Gene Page:

264821
269210 RsuA

269210 - RsuA

GO Terms:

GO:0004730, GO:0003723, GO:0006396, GO:0009982

CD Domains:

Go To Gene Page:

269210
30871 HAM1

30871 - HAM1

GO Terms:

GO:0016787, GO:0047429

CD Domains:

Go To Gene Page:

30871
37197 Pumilio superfamily

37197 - Pumilio superfamily

GO Terms:

GO:0003723, GO:0016071

CD Domains:

Go To Gene Page:

37197
38225 MPN_eIF3f

38225 - MPN_eIF3f

GO Terms:

GO:0004298, GO:0004299

CD Domains:

Go To Gene Page:

38225
39315 M20_dipept_like_CNDP

39315 - M20_dipept_like_CNDP

GO Terms:

GO:0006508, GO:0008237

CD Domains:

Go To Gene Page:

39315
42515 DEADc

42515 - DEADc

GO Terms:

GO:0003676, GO:0005524, GO:0008026, GO:0004386

CD Domains:

Go To Gene Page:

42515
42543 2OG-FeII_Oxy_2

42543 - 2OG-FeII_Oxy_2

GO Terms:

NA

CD Domains:

Go To Gene Page:

42543
649 SrmB

649 - SrmB

GO Terms:

GO:0003676, GO:0005524, GO:0008026, GO:0004386

CD Domains:

Go To Gene Page:

649
8019 ovoA_Nterm

8019 - ovoA_Nterm

GO Terms:

GO:0008757, GO:0005554

CD Domains:

Go To Gene Page:

8019
8235 hypothetical protein

8235 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8235
9608 hypothetical protein

9608 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9608
GO ID Go Term p-value q-value Cluster
GO:0016071 mRNA metabolism 0.0129601 1 Thaps_bicluster_0211
GO:0006468 protein amino acid phosphorylation 0.270534 1 Thaps_bicluster_0211
GO:0006508 proteolysis and peptidolysis 0.0608081 1 Thaps_bicluster_0211
GO:0006355 regulation of transcription, DNA-dependent 0.368277 1 Thaps_bicluster_0211
GO:0006396 RNA processing 0.081025 1 Thaps_bicluster_0211
GO:0006352 transcription initiation 0.0186738 1 Thaps_bicluster_0211
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