Thaps_bicluster_0083 Residual: 0.43
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_0083 0.43 Thalassiosira pseudonana
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Displaying 1 - 32 of 32
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10693 hypothetical protein

10693 - hypothetical protein

GO Terms:

GO:0000074, GO:0005634

CD Domains:

Go To Gene Page:

10693
11314 hypothetical protein

11314 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11314
16828 S_TKc

16828 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

16828
17845 RRM_CNOT4

17845 - RRM_CNOT4

GO Terms:

GO:0003676, GO:0000151, GO:0004842, GO:0008270, GO:0016567

CD Domains:

Go To Gene Page:

17845
18076 ADK

18076 - ADK

GO Terms:

GO:0005524, GO:0006139, GO:0019201, GO:0004017

CD Domains:

Go To Gene Page:

18076
21104 Glyco_hydrolase_16 superfamily

21104 - Glyco_hydrolase_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21104
21612 PRK07206

21612 - PRK07206

GO Terms:

NA

CD Domains:

Go To Gene Page:

21612
21809 hypothetical protein

21809 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21809
2220 (Tp_HSF_2.4e) regulator [Rayko]

2220 - (Tp_HSF_2.4e) regulator [Rayko]

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

2220
22429 hypothetical protein

22429 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22429
24261 hypothetical protein

24261 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24261
25037 hypothetical protein

25037 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25037
25462 Ferritin_like superfamily

25462 - Ferritin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25462
25755 hypothetical protein

25755 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25755
25868 Methyltransf_16 superfamily

25868 - Methyltransf_16 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25868
26051 (GLNA) PLN02284

26051 - (GLNA) PLN02284

GO Terms:

GO:0004356, GO:0006807, GO:0006542

CD Domains:

Go To Gene Page:

26051
262025 GH18_chitinase-like superfamily

262025 - GH18_chitinase-like superfamily

GO Terms:

GO:0008152, GO:0016787, GO:0003824, GO:0005975

CD Domains:

Go To Gene Page:

262025
262083 Uup

262083 - Uup

GO Terms:

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

CD Domains:

Go To Gene Page:

262083
262152 hypothetical protein

262152 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

262152
263459 MATE_like superfamily

263459 - MATE_like superfamily

GO Terms:

GO:0005215, GO:0006810, GO:0016020, GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

263459
26560 PLN03026

26560 - PLN03026

GO Terms:

GO:0008152, GO:0016740, GO:0009058, GO:0016769, GO:0000105, GO:0004400

CD Domains:

Go To Gene Page:

26560
28441 eIF-3c_N superfamily

28441 - eIF-3c_N superfamily

GO Terms:

GO:0003743, GO:0005852, GO:0006413

CD Domains:

Go To Gene Page:

28441
32477 (ODC1) PLPDE_III_ODC

32477 - (ODC1) PLPDE_III_ODC

GO Terms:

GO:0003824, GO:0006596, GO:0004586

CD Domains:

Go To Gene Page:

32477
33968 (CEN2) PTZ00183

33968 - (CEN2) PTZ00183

GO Terms:

GO:0005509, GO:0001539, GO:0009288

CD Domains:

Go To Gene Page:

33968
34348 SAM_decarbox superfamily

34348 - SAM_decarbox superfamily

GO Terms:

GO:0004014, GO:0006597, GO:0008295

CD Domains:

Go To Gene Page:

34348
3563 (Tp_CCCH2) WD40 superfamily

3563 - (Tp_CCCH2) WD40 superfamily

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

3563
36614 PLN02536

36614 - PLN02536

GO Terms:

GO:0008837, GO:0009089

CD Domains:

Go To Gene Page:

36614
41122 MPN_eIF3h

41122 - MPN_eIF3h

GO Terms:

NA

CD Domains:

Go To Gene Page:

41122
4740 (Tp_HSF_2.2c) HSF_DNA-bind superfamily

4740 - (Tp_HSF_2.2c) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

4740
5885 Methyltrans_SAM

5885 - Methyltrans_SAM

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

5885
5899 hypothetical protein

5899 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5899
ThpsCt009 (trnS(gcu))

ThpsCt009 - (trnS(gcu))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt009
GO ID Go Term p-value q-value Cluster
GO:0006542 glutamine biosynthesis 0.00434153 1 Thaps_bicluster_0083
GO:0006596 polyamine biosynthesis 0.00434153 1 Thaps_bicluster_0083
GO:0008295 spermidine biosynthesis 0.00434153 1 Thaps_bicluster_0083
GO:0006597 spermine biosynthesis 0.00434153 1 Thaps_bicluster_0083
GO:0009089 lysine biosynthesis via diaminopimelate 0.0129708 1 Thaps_bicluster_0083
GO:0001539 ciliary or flagellar motility 0.0172587 1 Thaps_bicluster_0083
GO:0000105 histidine biosynthesis 0.0342335 1 Thaps_bicluster_0083
GO:0006807 nitrogen compound metabolism 0.0467809 1 Thaps_bicluster_0083
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0632695 1 Thaps_bicluster_0083
GO:0006413 translational initiation 0.0993813 1 Thaps_bicluster_0083
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