Thaps_bicluster_0030 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.
Title Residual Model version Organism
Thaps_bicluster_0030 0.47 Thalassiosira pseudonana
Displaying 1 - 45 of 45
10903 hypothetical protein

10903 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10903
10927 hypothetical protein

10927 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10927
11129 hypothetical protein

11129 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11129
11543 hypothetical protein

11543 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11543
11548 MDR8

11548 - MDR8

GO Terms:

GO:0008270, GO:0016491

CD Domains:

Go To Gene Page:

11548
19913 ybbN

19913 - ybbN

GO Terms:

GO:0005489, GO:0006118, GO:0004791

CD Domains:

Go To Gene Page:

19913
20821 SCP superfamily

20821 - SCP superfamily

GO Terms:

GO:0005576

CD Domains:

Go To Gene Page:

20821
21592 hypothetical protein

21592 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21592
21900 COG1233

21900 - COG1233

GO Terms:

GO:0016117, GO:0016705, GO:0050660

CD Domains:

Go To Gene Page:

21900
22681 hypothetical protein

22681 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22681
23271 hypothetical protein

23271 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23271
24067 hypothetical protein

24067 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24067
24383 hypothetical protein

24383 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24383
24435 2a58

24435 - 2a58

GO Terms:

GO:0006817, GO:0015321, GO:0016020

CD Domains:

Go To Gene Page:

24435
24564 hypothetical protein

24564 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24564
24726 PLN00113

24726 - PLN00113

GO Terms:

NA

CD Domains:

Go To Gene Page:

24726
2496 hypothetical protein

2496 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2496
25088 hypothetical protein

25088 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25088
25439 hypothetical protein

25439 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25439
263081 PLN00113

263081 - PLN00113

GO Terms:

NA

CD Domains:

Go To Gene Page:

263081
26365 fadJ

26365 - fadJ

GO Terms:

GO:0003824, GO:0008152, GO:0006631, GO:0016491

CD Domains:

Go To Gene Page:

26365
264577 lysozyme_like superfamily

264577 - lysozyme_like superfamily

GO Terms:

GO:0004568, GO:0006032, GO:0009613, GO:0016998, GO:0008843

CD Domains:

Go To Gene Page:

264577
268234 hypothetical protein

268234 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268234
269307 hypothetical protein

269307 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269307
269316 fadE

269316 - fadE

GO Terms:

GO:0006118, GO:0016491

CD Domains:

Go To Gene Page:

269316
270137 EFh

270137 - EFh

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

270137
3075 hypothetical protein

3075 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3075
30804 AdoMet_dc

30804 - AdoMet_dc

GO Terms:

NA

CD Domains:

Go To Gene Page:

30804
31062 WD40

31062 - WD40

GO Terms:

NA

CD Domains:

Go To Gene Page:

31062
3108 hypothetical protein

3108 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

3108
31722 HMGB-UBF_HMG-box

31722 - HMGB-UBF_HMG-box

GO Terms:

GO:0000785, GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

31722
34809 (KCT1) PRK05790

34809 - (KCT1) PRK05790

GO Terms:

GO:0003988

CD Domains:

Go To Gene Page:

34809
35710 (ACD1) SCAD_SBCAD

35710 - (ACD1) SCAD_SBCAD

GO Terms:

GO:0003995, GO:0006118, GO:0016491, GO:0016937, GO:0017099, GO:0019109

CD Domains:

Go To Gene Page:

35710
3627 fadI

3627 - fadI

GO Terms:

GO:0003988

CD Domains:

Go To Gene Page:

3627
38047 RCC1

38047 - RCC1

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

38047
38231 (PETC2) PRK13474

38231 - (PETC2) PRK13474

GO Terms:

GO:0006118, GO:0008121, GO:0016020, GO:0045285, GO:0016491, GO:0009496

CD Domains:

Go To Gene Page:

38231
38907 Abhydrolase_5

38907 - Abhydrolase_5

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

38907
4348 hypothetical protein

4348 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4348
6422 hypothetical protein

6422 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6422
7974 hypothetical protein

7974 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7974
9145 hypothetical protein

9145 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9145
9240 hypothetical protein

9240 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9240
9500 hypothetical protein

9500 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9500
9552 hypothetical protein

9552 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

9552
ThpsCr004 (rrn5')

ThpsCr004 - (rrn5')

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCr004
GO ID Go Term p-value q-value Cluster
GO:0006118 electron transport 0.00311497 1 Thaps_bicluster_0030
GO:0006631 fatty acid metabolism 0.00742571 1 Thaps_bicluster_0030
GO:0006817 phosphate transport 0.0123481 1 Thaps_bicluster_0030
GO:0016117 carotenoid biosynthesis 0.0196897 1 Thaps_bicluster_0030
GO:0006032 chitin catabolism 0.0196897 1 Thaps_bicluster_0030
GO:0016998 cell wall catabolism 0.0221257 1 Thaps_bicluster_0030
GO:0009613 response to pest, pathogen or parasite 0.0221257 1 Thaps_bicluster_0030
GO:0006355 regulation of transcription, DNA-dependent 0.545155 1 Thaps_bicluster_0030
GO:0008152 metabolism 0.652155 1 Thaps_bicluster_0030
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