Thaps_bicluster_0176 Residual: 0.34
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_0176 0.34 Thalassiosira pseudonana
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Displaying 1 - 30 of 30
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12637 MYSc

12637 - MYSc

GO Terms:

GO:0003774, GO:0005524, GO:0016459

CD Domains:

Go To Gene Page:

12637
14942 Motor_domain superfamily

14942 - Motor_domain superfamily

GO Terms:

GO:0003777, GO:0005524, GO:0005875, GO:0007018

CD Domains:

Go To Gene Page:

14942
19632 (Tp_CBF/NF1b) regulator [Rayko]

19632 - (Tp_CBF/NF1b) regulator [Rayko]

GO Terms:

GO:0003677, GO:0003887, GO:0003889, GO:0003890, GO:0003891, GO:0003893, GO:0003894, GO:0003895, GO:0015999, GO:0016000, GO:0016448, GO:0016449, GO:0016450, GO:0016451, GO:0016452, GO:0019984

CD Domains:

Go To Gene Page:

19632
2085 hypothetical protein

2085 - hypothetical protein

GO Terms:

GO:0005351, GO:0009401

CD Domains:

Go To Gene Page:

2085
21233 hypothetical protein

21233 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21233
23734 hypothetical protein

23734 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23734
23994 UCH

23994 - UCH

GO Terms:

GO:0004197, GO:0004221, GO:0006511

CD Domains:

Go To Gene Page:

23994
261781 (MutS) MutS

261781 - (MutS) MutS

GO Terms:

GO:0003684, GO:0005524, GO:0006298, GO:0006259

CD Domains:

Go To Gene Page:

261781
262574 (ssrp1) PH1_SSRP1-like

262574 - (ssrp1) PH1_SSRP1-like

GO Terms:

GO:0003677, GO:0006355, GO:0005634

CD Domains:

Go To Gene Page:

262574
264672 (Cdc45) CDC45 superfamily

264672 - (Cdc45) CDC45 superfamily

GO Terms:

GO:0000074, GO:0006270

CD Domains:

Go To Gene Page:

264672
28217 COG5406

28217 - COG5406

GO Terms:

NA

CD Domains:

Go To Gene Page:

28217
28317 trimeric_dUTPase

28317 - trimeric_dUTPase

GO Terms:

GO:0046080, GO:0016787, GO:0004170

CD Domains:

Go To Gene Page:

28317
3158 HepA

3158 - HepA

GO Terms:

GO:0005524, GO:0008026, GO:0003910

CD Domains:

Go To Gene Page:

3158
32706 VRG4

32706 - VRG4

GO Terms:

NA

CD Domains:

Go To Gene Page:

32706
34878 Abhydrolase_5

34878 - Abhydrolase_5

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

34878
34992 CAP_N superfamily

34992 - CAP_N superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

34992
35055 (ASK1) APSK

35055 - (ASK1) APSK

GO Terms:

GO:0000103, GO:0005524, GO:0016301, GO:0016772, GO:0004020

CD Domains:

Go To Gene Page:

35055
35420 ALDH-SF superfamily

35420 - ALDH-SF superfamily

GO Terms:

GO:0008152, GO:0016491, GO:0004029

CD Domains:

Go To Gene Page:

35420
36373 DUF1295 superfamily

36373 - DUF1295 superfamily

GO Terms:

GO:0016021

CD Domains:

Go To Gene Page:

36373
3928 KDSR-like_SDR_c

3928 - KDSR-like_SDR_c

GO Terms:

GO:0008152, GO:0016491, GO:0047560

CD Domains:

Go To Gene Page:

3928
40206 UAA

40206 - UAA

GO Terms:

NA

CD Domains:

Go To Gene Page:

40206
5400 Lactamase_B superfamily

5400 - Lactamase_B superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

5400
5775 PKc_like superfamily

5775 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

5775
7004 hypothetical protein

7004 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7004
7942 hypothetical protein

7942 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7942
8387 DUF1900

8387 - DUF1900

GO Terms:

NA

CD Domains:

Go To Gene Page:

8387
961 cond_enzymes superfamily

961 - cond_enzymes superfamily

GO Terms:

GO:0003824, GO:0006633

CD Domains:

Go To Gene Page:

961
GO ID Go Term p-value q-value Cluster
GO:0006270 DNA replication initiation 0.000412588 1 Thaps_bicluster_0176
GO:0046080 dUTP metabolism 0.00351458 1 Thaps_bicluster_0176
GO:0006260 DNA replication 0.00646252 1 Thaps_bicluster_0176
GO:0000103 sulfate assimilation 0.0139887 1 Thaps_bicluster_0176
GO:0006259 DNA metabolism 0.0481589 1 Thaps_bicluster_0176
GO:0006298 mismatch repair 0.0548579 1 Thaps_bicluster_0176
GO:0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system 0.0615124 1 Thaps_bicluster_0176
GO:0006633 fatty acid biosynthesis 0.0648231 1 Thaps_bicluster_0176
GO:0007018 microtubule-based movement 0.141059 1 Thaps_bicluster_0176
GO:0006511 ubiquitin-dependent protein catabolism 0.165143 1 Thaps_bicluster_0176
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