Thaps_bicluster_0265 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_0265 0.39 Thalassiosira pseudonana
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Displaying 1 - 32 of 32
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11115 hypothetical protein

11115 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11115
11117 EFh

11117 - EFh

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

11117
20232 AAA_12

20232 - AAA_12

GO Terms:

NA

CD Domains:

Go To Gene Page:

20232
21757 PI-PLCc_GDPD_SF superfamily

21757 - PI-PLCc_GDPD_SF superfamily

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

21757
2178 WD40 superfamily

2178 - WD40 superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

2178
22659 hypothetical protein

22659 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22659
23337 RRP7_Rrp7p

23337 - RRP7_Rrp7p

GO Terms:

NA

CD Domains:

Go To Gene Page:

23337
23540 glyco_like_mftF

23540 - glyco_like_mftF

GO Terms:

NA

CD Domains:

Go To Gene Page:

23540
23831 hypothetical protein

23831 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23831
23962 hypothetical protein

23962 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23962
24361 PRK00142

24361 - PRK00142

GO Terms:

NA

CD Domains:

Go To Gene Page:

24361
24362 hypothetical protein

24362 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24362
24563 Nitro_FMN_reductase superfamily

24563 - Nitro_FMN_reductase superfamily

GO Terms:

GO:0006118, GO:0016491, GO:0005509

CD Domains:

Go To Gene Page:

24563
25652 ANK

25652 - ANK

GO Terms:

GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

25652
25905 hypothetical protein

25905 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25905
261233 (PDK1_1) BCDHK_Adom3

261233 - (PDK1_1) BCDHK_Adom3

GO Terms:

GO:0005524, GO:0016310, GO:0016772, GO:0006468, GO:0016301

CD Domains:

Go To Gene Page:

261233
264305 UT

264305 - UT

GO Terms:

GO:0015204, GO:0015840, GO:0016021

CD Domains:

Go To Gene Page:

264305
264633 SERPIN

264633 - SERPIN

GO Terms:

GO:0004867

CD Domains:

Go To Gene Page:

264633
268543 hypothetical protein

268543 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268543
268986 (dhs1) DS

268986 - (dhs1) DS

GO Terms:

GO:0008612, GO:0004171, GO:0050983

CD Domains:

Go To Gene Page:

268986
269057 (PGK4) PGK

269057 - (PGK4) PGK

GO Terms:

GO:0004618, GO:0006096

CD Domains:

Go To Gene Page:

269057
269199 crotonase-like

269199 - crotonase-like

GO Terms:

GO:0003824, GO:0008152, GO:0004300

CD Domains:

Go To Gene Page:

269199
270148 NBD_sugar-kinase_HSP70_actin superfamily

270148 - NBD_sugar-kinase_HSP70_actin superfamily

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

270148
35084 IF4E

35084 - IF4E

GO Terms:

GO:0003723, GO:0003743, GO:0005737, GO:0006413

CD Domains:

Go To Gene Page:

35084
35087 TIGR00275

35087 - TIGR00275

GO Terms:

GO:0006118, GO:0015036

CD Domains:

Go To Gene Page:

35087
35527 PLN02327

35527 - PLN02327

GO Terms:

GO:0003824, GO:0003883, GO:0006221

CD Domains:

Go To Gene Page:

35527
36979 PIN_Fcf1

36979 - PIN_Fcf1

GO Terms:

NA

CD Domains:

Go To Gene Page:

36979
40831 Tryp_SPc

40831 - Tryp_SPc

GO Terms:

GO:0004295, GO:0006508, GO:0004263

CD Domains:

Go To Gene Page:

40831
7828 hypothetical protein

7828 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7828
8676 alpha-crystallin-Hsps_p23-like superfamily

8676 - alpha-crystallin-Hsps_p23-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

8676
GO ID Go Term p-value q-value Cluster
GO:0008612 hypusine biosynthesis from peptidyl-lysine 0.00268762 1 Thaps_bicluster_0265
GO:0050983 spermidine catabolism to deoxyhypusine, using deoxyhypusine synthase 0.00268762 1 Thaps_bicluster_0265
GO:0015840 urea transport 0.00536856 1 Thaps_bicluster_0265
GO:0006221 pyrimidine nucleotide biosynthesis 0.00804286 1 Thaps_bicluster_0265
GO:0016310 phosphorylation 0.0344231 1 Thaps_bicluster_0265
GO:0006413 translational initiation 0.0626925 1 Thaps_bicluster_0265
GO:0006096 glycolysis 0.0951161 1 Thaps_bicluster_0265
GO:0006118 electron transport 0.157847 1 Thaps_bicluster_0265
GO:0016567 protein ubiquitination 0.192928 1 Thaps_bicluster_0265
GO:0006468 protein amino acid phosphorylation 0.443559 1 Thaps_bicluster_0265
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