Thaps_bicluster_0105 Residual: 0.42
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_0105 0.42 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 27 of 27
" class="views-fluidgrid-wrapper clear-block">
10059 hypothetical protein

10059 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10059
11479 hypothetical protein

11479 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11479
1237 Seipin superfamily

1237 - Seipin superfamily

GO Terms:

GO:0003700, GO:0005622, GO:0006355

CD Domains:

Go To Gene Page:

1237
1644 Pkinase

1644 - Pkinase

GO Terms:

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

CD Domains:

Go To Gene Page:

1644
1871 hypothetical protein

1871 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1871
21083 hypothetical protein

21083 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21083
21713 UbiH

21713 - UbiH

GO Terms:

GO:0004497, GO:0006725, GO:0006118, GO:0008152, GO:0016491, GO:0004502

CD Domains:

Go To Gene Page:

21713
2241 Methyltransf_21

2241 - Methyltransf_21

GO Terms:

NA

CD Domains:

Go To Gene Page:

2241
22473 aliphatic_amidase

22473 - aliphatic_amidase

GO Terms:

GO:0006807, GO:0016810

CD Domains:

Go To Gene Page:

22473
22520 RecN

22520 - RecN

GO Terms:

GO:0006364

CD Domains:

Go To Gene Page:

22520
23514 hypothetical protein

23514 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23514
24184 ArfGap

24184 - ArfGap

GO Terms:

GO:0043087

CD Domains:

Go To Gene Page:

24184
25046 hypothetical protein

25046 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25046
26146 14-3-3

26146 - 14-3-3

GO Terms:

GO:0019904

CD Domains:

Go To Gene Page:

26146
262719 CHD

262719 - CHD

GO Terms:

GO:0007242, GO:0009190, GO:0016849, GO:0004016, GO:0008294

CD Domains:

Go To Gene Page:

262719
2679 hypothetical protein

2679 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2679
268472 Sugar_tr

268472 - Sugar_tr

GO Terms:

GO:0005355, GO:0006810, GO:0016020, GO:0005351, GO:0008643, GO:0005215, GO:0016021, GO:0008733

CD Domains:

Go To Gene Page:

268472
3206 CAP10 superfamily

3206 - CAP10 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3206
3450 hypothetical protein

3450 - hypothetical protein

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

3450
35423 (CEN1) PTZ00183

35423 - (CEN1) PTZ00183

GO Terms:

GO:0003676, GO:0005524, GO:0008026, GO:0005509, GO:0001539, GO:0009288

CD Domains:

Go To Gene Page:

35423
5212 (Tp_CCCH26) regulator [Rayko]

5212 - (Tp_CCCH26) regulator [Rayko]

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

5212
5337 hypothetical protein

5337 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5337
5360 hypothetical protein

5360 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5360
6062 hypothetical protein

6062 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6062
6838 DUF3754

6838 - DUF3754

GO Terms:

NA

CD Domains:

Go To Gene Page:

6838
8348 Peptidase_C97

8348 - Peptidase_C97

GO Terms:

NA

CD Domains:

Go To Gene Page:

8348
940 hypothetical protein

940 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

940
GO ID Go Term p-value q-value Cluster
GO:0001539 ciliary or flagellar motility 0.0123506 1 Thaps_bicluster_0105
GO:0006364 rRNA processing 0.0245587 1 Thaps_bicluster_0105
GO:0043087 regulation of GTPase activity 0.0306099 1 Thaps_bicluster_0105
GO:0006807 nitrogen compound metabolism 0.0336223 1 Thaps_bicluster_0105
GO:0008643 carbohydrate transport 0.0426071 1 Thaps_bicluster_0105
GO:0016192 vesicle-mediated transport 0.0485536 1 Thaps_bicluster_0105
GO:0009190 cyclic nucleotide biosynthesis 0.066187 1 Thaps_bicluster_0105
GO:0006725 aromatic compound metabolism 0.066187 1 Thaps_bicluster_0105
GO:0007242 intracellular signaling cascade 0.122787 1 Thaps_bicluster_0105
GO:0006412 protein biosynthesis 0.408205 1 Thaps_bicluster_0105
Log in to post comments