Thaps_bicluster_0003 Residual: 0.47
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.

Summary

Title Residual Model version Organism
Thaps_bicluster_0003 0.47 Thalassiosira pseudonana

Module Plots

Motifs

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Members

Displaying 1 - 57 of 57
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10559 HisA_HisF

10559 - HisA_HisF

GO Terms:

GO:0000105, GO:0003949

CD Domains:

Go To Gene Page:

10559
10787 P4Hc

10787 - P4Hc

GO Terms:

GO:0016706, GO:0019538

CD Domains:

Go To Gene Page:

10787
11045 PKc_like superfamily

11045 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

11045
11302 RCC1

11302 - RCC1

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

11302
11633 hypothetical protein

11633 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11633
11671 hypothetical protein

11671 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11671
12025 CAP10 superfamily

12025 - CAP10 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

12025
14637 GH43_6

14637 - GH43_6

GO Terms:

NA

CD Domains:

Go To Gene Page:

14637
15858 galactose_mutarotase_like

15858 - galactose_mutarotase_like

GO Terms:

GO:0004034, GO:0006012

CD Domains:

Go To Gene Page:

15858
2033 hypothetical protein

2033 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2033
20462 DnaJ

20462 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

20462
21587 hypothetical protein

21587 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21587
2170 hypothetical protein

2170 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2170
22308 DUF2451 superfamily

22308 - DUF2451 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

22308
22887 hypothetical protein

22887 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22887
22899 hypothetical protein

22899 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22899
22993 ATP-grasp_4

22993 - ATP-grasp_4

GO Terms:

NA

CD Domains:

Go To Gene Page:

22993
23313 hypothetical protein

23313 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23313
23858 PI-PLCc_GDPD_SF superfamily

23858 - PI-PLCc_GDPD_SF superfamily

GO Terms:

GO:0006071, GO:0008889

CD Domains:

Go To Gene Page:

23858
24044 hypothetical protein

24044 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24044
25012 hypothetical protein

25012 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25012
25492 hypothetical protein

25492 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25492
261437 hypothetical protein

261437 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

261437
263097 GH18_chitinase-like superfamily

263097 - GH18_chitinase-like superfamily

GO Terms:

GO:0008152, GO:0016787, GO:0005576, GO:0006030, GO:0008061, GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

263097
263622 GH18_chitinase-like superfamily

263622 - GH18_chitinase-like superfamily

GO Terms:

GO:0008152, GO:0016787, GO:0003824, GO:0005975, GO:0004568, GO:0008843

CD Domains:

Go To Gene Page:

263622
269066 hypothetical protein

269066 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269066
270273 thioredoxin

270273 - thioredoxin

GO Terms:

NA

CD Domains:

Go To Gene Page:

270273
27822 hypothetical protein

27822 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

27822
29936 MCM
31007 DsbA_FrnE

31007 - DsbA_FrnE

GO Terms:

GO:0015035, GO:0030288

CD Domains:

Go To Gene Page:

31007
32880 CAP_ED

32880 - CAP_ED

GO Terms:

GO:0005952, GO:0006468, GO:0008603, GO:0004672, GO:0004682, GO:0004691, GO:0005956, GO:0008605

CD Domains:

Go To Gene Page:

32880
34746 Peptidase_S9 superfamily

34746 - Peptidase_S9 superfamily

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

34746
35340 DUF3228 superfamily

35340 - DUF3228 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

35340
36206 Rer1

36206 - Rer1

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

36206
36686 2A43

36686 - 2A43

GO Terms:

NA

CD Domains:

Go To Gene Page:

36686
37322 PKc_like superfamily

37322 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

37322
38510 NK superfamily

38510 - NK superfamily

GO Terms:

GO:0004594

CD Domains:

Go To Gene Page:

38510
38860 HELICc

38860 - HELICc

GO Terms:

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

CD Domains:

Go To Gene Page:

38860
4016 hypothetical protein

4016 - hypothetical protein

GO Terms:

GO:0004190, GO:0006508

CD Domains:

Go To Gene Page:

4016
4017 hypothetical protein

4017 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4017
4629 hypothetical protein

4629 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4629
4985 hypothetical protein

4985 - hypothetical protein

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

4985
5028 RdRP

5028 - RdRP

GO Terms:

NA

CD Domains:

Go To Gene Page:

5028
5410 hypothetical protein

5410 - hypothetical protein

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

5410
5805 ENDO3c superfamily

5805 - ENDO3c superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5805
6143 HSA
6398 hypothetical protein

6398 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6398
7282 hypothetical protein

7282 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

7282
7632 hypothetical protein

7632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7632
7902 cwf18 superfamily

7902 - cwf18 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

7902
8564 hypothetical protein

8564 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8564
8930 hypothetical protein

8930 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8930
9012 hypothetical protein

9012 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9012
9243 hypothetical protein

9243 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9243
951 hypothetical protein

951 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

951
9711 MCM

9711 - MCM

GO Terms:

NA

CD Domains:

Go To Gene Page:

9711
ThpsCt021 (trnL(uag))

ThpsCt021 - (trnL(uag))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt021

GO Enrichment

GO ID Go Term p-value q-value Cluster
GO:0006071 glycerol metabolism 0.00660541 1 Thaps_bicluster_0003
GO:0006012 galactose metabolism 0.0196937 1 Thaps_bicluster_0003
GO:0000105 histidine biosynthesis 0.0261771 1 Thaps_bicluster_0003
GO:0006270 DNA replication initiation 0.0294036 1 Thaps_bicluster_0003
GO:0006468 protein amino acid phosphorylation 0.0308435 1 Thaps_bicluster_0003
GO:0006030 chitin metabolism 0.067349 1 Thaps_bicluster_0003
GO:0019538 protein metabolism 0.14198 1 Thaps_bicluster_0003
GO:0005975 carbohydrate metabolism 0.221528 1 Thaps_bicluster_0003
GO:0006508 proteolysis and peptidolysis 0.2461 1 Thaps_bicluster_0003
GO:0006457 protein folding 0.353763 1 Thaps_bicluster_0003

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