Thaps_bicluster_0029 Residual: 0.39
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_0029 0.39 Thalassiosira pseudonana
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Displaying 1 - 47 of 47
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1051 Gst

1051 - Gst

GO Terms:

NA

CD Domains:

Go To Gene Page:

1051
10952 hypothetical protein

10952 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

10952
11427 LPLAT_AGPAT-like

11427 - LPLAT_AGPAT-like

GO Terms:

GO:0008152, GO:0008415

CD Domains:

Go To Gene Page:

11427
11522 hypothetical protein

11522 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11522
12075 ZnMc superfamily

12075 - ZnMc superfamily

GO Terms:

GO:0006508, GO:0008237, GO:0008270

CD Domains:

Go To Gene Page:

12075
2038 hypothetical protein

2038 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2038
21224 RRM_SF

21224 - RRM_SF

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

21224
21247 hypothetical protein

21247 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21247
21879 hypothetical protein

21879 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21879
22583 hypothetical protein

22583 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22583
22998 hypothetical protein

22998 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22998
23310 hypothetical protein

23310 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23310
23347 hypothetical protein

23347 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23347
23648 hypothetical protein

23648 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23648
23649 GLTP

23649 - GLTP

GO Terms:

NA

CD Domains:

Go To Gene Page:

23649
23791 hypothetical protein

23791 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23791
23889 (Lhcr9) fucoxanthin chl a/c light-harvesting protein

23889 - (Lhcr9) fucoxanthin chl a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23889
24959 hypothetical protein

24959 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24959
25108 hypothetical protein

25108 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25108
2513 hypothetical protein

2513 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2513
25262 hypothetical protein

25262 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25262
25433 (Lhcr5) fucoxanthin chlorophyll a/c light-harvesting protein

25433 - (Lhcr5) fucoxanthin chlorophyll a/c light-harvesting protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25433
261087 BioA

261087 - BioA

GO Terms:

NA

CD Domains:

Go To Gene Page:

261087
262764 hypothetical protein

262764 - hypothetical protein

GO Terms:

GO:0004182, GO:0006508

CD Domains:

Go To Gene Page:

262764
26405 (FtrB) reductase of ferredoxin thioredoxin reductase

26405 - (FtrB) reductase of ferredoxin thioredoxin reductase

GO Terms:

NA

CD Domains:

Go To Gene Page:

26405
264353 Mito_carr

264353 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020, GO:0005743

CD Domains:

Go To Gene Page:

264353
264466 OTU

264466 - OTU

GO Terms:

NA

CD Domains:

Go To Gene Page:

264466
264596 (Tp_HSF_3.5i) HSF_DNA-bind superfamily

264596 - (Tp_HSF_3.5i) HSF_DNA-bind superfamily

GO Terms:

GO:0003700, GO:0005634, GO:0006355, GO:0003677

CD Domains:

Go To Gene Page:

264596
2646 hypothetical protein

2646 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2646
267971 MORN superfamily

267971 - MORN superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

267971
268147 Trp_Tyr_perm superfamily

268147 - Trp_Tyr_perm superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

268147
268788 (Tp_Myb1R_SHAQKYF3) MYB DNA binding protein/ transcription factor-like protein

268788 - (Tp_Myb1R_SHAQKYF3) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

GO:0003677, GO:0005634

CD Domains:

Go To Gene Page:

268788
269141 TPR

269141 - TPR

GO Terms:

GO:0005622, GO:0006396

CD Domains:

Go To Gene Page:

269141
270361 hypothetical protein

270361 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270361
29950 PTZ00018

29950 - PTZ00018

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

29950
38272 NAD_binding_8 superfamily

38272 - NAD_binding_8 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

38272
40554 Uup

40554 - Uup

GO Terms:

GO:0005524, GO:0016887, GO:0000166, GO:0017111

CD Domains:

Go To Gene Page:

40554
5125 hypothetical protein

5125 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5125
5706 hypothetical protein

5706 - hypothetical protein

GO Terms:

GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

5706
5799 hypothetical protein

5799 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5799
735 PRK05888

735 - PRK05888

GO Terms:

GO:0005489, GO:0005506, GO:0006118, GO:0016651

CD Domains:

Go To Gene Page:

735
7536 hypothetical protein

7536 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7536
7669 hypothetical protein

7669 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7669
8446 hypothetical protein

8446 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8446
8855 hypothetical protein

8855 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

8855
9141 hypothetical protein

9141 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

9141
9519 ANK

9519 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

9519
GO ID Go Term p-value q-value Cluster
GO:0006865 amino acid transport 0.0640724 1 Thaps_bicluster_0029
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0640724 1 Thaps_bicluster_0029
GO:0006334 nucleosome assembly 0.0683505 1 Thaps_bicluster_0029
GO:0006396 RNA processing 0.124391 1 Thaps_bicluster_0029
GO:0006508 proteolysis and peptidolysis 0.136325 1 Thaps_bicluster_0029
GO:0008152 metabolism 0.235335 1 Thaps_bicluster_0029
GO:0006810 transport 0.347574 1 Thaps_bicluster_0029
GO:0006118 electron transport 0.463588 1 Thaps_bicluster_0029
GO:0006355 regulation of transcription, DNA-dependent 0.514255 1 Thaps_bicluster_0029
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