Thaps_bicluster_0132 Residual: 0.41
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_0132 0.41 Thalassiosira pseudonana
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Displaying 1 - 34 of 34
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17811 NA

17811 - NA

GO Terms:

NA

CD Domains:

Go To Gene Page:

17811
20266 RRM_SF superfamily

20266 - RRM_SF superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

20266
20570 HABP4_PAI-RBP1

20570 - HABP4_PAI-RBP1

GO Terms:

NA

CD Domains:

Go To Gene Page:

20570
21723 DnaJ

21723 - DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

21723
22240 eRF1

22240 - eRF1

GO Terms:

GO:0005737, GO:0006415, GO:0016149

CD Domains:

Go To Gene Page:

22240
22389 hypothetical protein

22389 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22389
22879 hypothetical protein

22879 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22879
2291 hypothetical protein

2291 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2291
23142 Aa_trans superfamily

23142 - Aa_trans superfamily

GO Terms:

GO:0005279, GO:0006865, GO:0016020

CD Domains:

Go To Gene Page:

23142
23329 groEL

23329 - groEL

GO Terms:

GO:0005515, GO:0005524, GO:0044267, GO:0003763

CD Domains:

Go To Gene Page:

23329
24812 MviM

24812 - MviM

GO Terms:

GO:0006118, GO:0008152, GO:0016491

CD Domains:

Go To Gene Page:

24812
24834 hypothetical protein

24834 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24834
261047 Mito_carr

261047 - Mito_carr

GO Terms:

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

CD Domains:

Go To Gene Page:

261047
26109 (PRS1) PLN02369

26109 - (PRS1) PLN02369

GO Terms:

GO:0009116, GO:0016740, GO:0004749, GO:0009165

CD Domains:

Go To Gene Page:

26109
262414 (Tp_CSF5) CSP_CDS

262414 - (Tp_CSF5) CSP_CDS

GO Terms:

GO:0003677, GO:0006355, GO:0003676

CD Domains:

Go To Gene Page:

262414
28189 (HSP70_3) PTZ00009

28189 - (HSP70_3) PTZ00009

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

28189
30478 (hisH) PLN02617

30478 - (hisH) PLN02617

GO Terms:

GO:0003824, GO:0000105, GO:0000107, GO:0005737, GO:0009382, GO:0016763, GO:0018071, GO:0018121, GO:0018127

CD Domains:

Go To Gene Page:

30478
3057 AAK_CK

3057 - AAK_CK

GO Terms:

GO:0008652, GO:0006525, GO:0008804

CD Domains:

Go To Gene Page:

3057
32137 PLN02954

32137 - PLN02954

GO Terms:

GO:0004647, GO:0006564, GO:0003824, GO:0008152, GO:0016791

CD Domains:

Go To Gene Page:

32137
33709 RRM_SF superfamily

33709 - RRM_SF superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

33709
34044 PA2G4-like

34044 - PA2G4-like

GO Terms:

GO:0004239, GO:0006508

CD Domains:

Go To Gene Page:

34044
34303 TEF1

34303 - TEF1

GO Terms:

GO:0005525, GO:0006412, GO:0003924, GO:0008547

CD Domains:

Go To Gene Page:

34303
37450 (SPP1) PqqL

37450 - (SPP1) PqqL

GO Terms:

GO:0016491, GO:0004222, GO:0006508

CD Domains:

Go To Gene Page:

37450
38216 AarF

38216 - AarF

GO Terms:

NA

CD Domains:

Go To Gene Page:

38216
41178 hisG

41178 - hisG

GO Terms:

GO:0000105, GO:0003879

CD Domains:

Go To Gene Page:

41178
5656 DUF1823 superfamily

5656 - DUF1823 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5656
5851 hypothetical protein

5851 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5851
7322 PTZ00327

7322 - PTZ00327

GO Terms:

GO:0005525, GO:0006412, GO:0003924, GO:0008547

CD Domains:

Go To Gene Page:

7322
8546 60KD_IMP superfamily

8546 - 60KD_IMP superfamily

GO Terms:

GO:0016021, GO:0051205

CD Domains:

Go To Gene Page:

8546
93 ELO

93 - ELO

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

93
9943 hypothetical protein

9943 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9943
ThpsCp075 (ycf89) hypothetical protein

ThpsCp075 - (ycf89) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp075
ThpsCp124 (rps10) ribosomal protein S10

ThpsCp124 - (rps10) ribosomal protein S10

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp124
ThpsCp142 (ycf89') hypothetical protein

ThpsCp142 - (ycf89') hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp142
GO ID Go Term p-value q-value Cluster
GO:0008652 amino acid biosynthesis 0.0467809 1 Thaps_bicluster_0132
GO:0006865 amino acid transport 0.118866 1 Thaps_bicluster_0132
GO:0006525 arginine metabolism 0.0129708 1 Thaps_bicluster_0132
GO:0044267 cellular protein metabolism 0.059173 1 Thaps_bicluster_0132
GO:0006118 electron transport 0.695885 1 Thaps_bicluster_0132
GO:0000105 histidine biosynthesis 0.000494894 1 Thaps_bicluster_0132
GO:0006564 L-serine biosynthesis 0.0384333 1 Thaps_bicluster_0132
GO:0008152 metabolism 0.537929 1 Thaps_bicluster_0132
GO:0009116 nucleoside metabolism 0.0257813 1 Thaps_bicluster_0132
GO:0009165 nucleotide biosynthesis 0.0172587 1 Thaps_bicluster_0132
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