Thaps_bicluster_0061 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_0061 0.42 Thalassiosira pseudonana
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Displaying 1 - 41 of 41
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10322 hypothetical protein

10322 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10322
10683 LSm7

10683 - LSm7

GO Terms:

GO:0005634, GO:0005732, GO:0006397, GO:0030529

CD Domains:

Go To Gene Page:

10683
10801 hypothetical protein

10801 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

10801
10946 CwfJ_C_1 superfamily

10946 - CwfJ_C_1 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10946
11106 hypothetical protein

11106 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11106
1308 ANK

1308 - ANK

GO Terms:

NA

CD Domains:

Go To Gene Page:

1308
18662 ADK

18662 - ADK

GO Terms:

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

CD Domains:

Go To Gene Page:

18662
2003 hypothetical protein

2003 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2003
2004 hypothetical protein

2004 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2004
20819 hypothetical protein

20819 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20819
21882 MutL_C

21882 - MutL_C

GO Terms:

NA

CD Domains:

Go To Gene Page:

21882
22218 hypothetical protein

22218 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22218
22487 COG5222

22487 - COG5222

GO Terms:

NA

CD Domains:

Go To Gene Page:

22487
23584 KOW_RPL26

23584 - KOW_RPL26

GO Terms:

GO:0003735, GO:0005622, GO:0005840, GO:0006412

CD Domains:

Go To Gene Page:

23584
23996 hypothetical protein

23996 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

23996
24764 hypothetical protein

24764 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24764
24818 hypothetical protein

24818 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24818
24921 HA

24921 - HA

GO Terms:

NA

CD Domains:

Go To Gene Page:

24921
24943 COG3899

24943 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

24943
25664 hypothetical protein

25664 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25664
261839 SrmB

261839 - SrmB

GO Terms:

GO:0005524, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

261839
262646 LRR_RI superfamily

262646 - LRR_RI superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

262646
263961 (Tp_Myb1R1) MYB DNA binding protein/ transcription factor-like protein

263961 - (Tp_Myb1R1) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

263961
264261 COG3899

264261 - COG3899

GO Terms:

NA

CD Domains:

Go To Gene Page:

264261
264576 lysozyme_like superfamily

264576 - lysozyme_like superfamily

GO Terms:

GO:0004568, GO:0006032, GO:0009613, GO:0016998, GO:0008843

CD Domains:

Go To Gene Page:

264576
3157 hypothetical protein

3157 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3157
33680 HMG-CoA_reductase_classI

33680 - HMG-CoA_reductase_classI

GO Terms:

GO:0004420, GO:0009058, GO:0006629, GO:0016021

CD Domains:

Go To Gene Page:

33680
3632 hypothetical protein

3632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

3632
36490 (APS2) APS2

36490 - (APS2) APS2

GO Terms:

GO:0006886, GO:0030125

CD Domains:

Go To Gene Page:

36490
37727 S_TKc

37727 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

37727
38171 UDG_F1

38171 - UDG_F1

GO Terms:

GO:0004844, GO:0006281, GO:0016799, GO:0017065, GO:0019104

CD Domains:

Go To Gene Page:

38171
38363 MYSc

38363 - MYSc

GO Terms:

GO:0003774, GO:0005524, GO:0016459

CD Domains:

Go To Gene Page:

38363
4765 RRM3_RBM39_like

4765 - RRM3_RBM39_like

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

4765
5915 hypothetical protein

5915 - hypothetical protein

GO Terms:

GO:0005524, GO:0015986, GO:0016469, GO:0046933, GO:0046961, GO:0005509

CD Domains:

Go To Gene Page:

5915
7374 hypothetical protein

7374 - hypothetical protein

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

7374
7576 hypothetical protein

7576 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7576
7816 hypothetical protein

7816 - hypothetical protein

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

7816
8490 hypothetical protein

8490 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8490
8711 hypothetical protein

8711 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8711
8812 hypothetical protein

8812 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8812
GO ID Go Term p-value q-value Cluster
GO:0006032 chitin catabolism 0.021315 1 Thaps_bicluster_0061
GO:0016998 cell wall catabolism 0.0239497 1 Thaps_bicluster_0061
GO:0009613 response to pest, pathogen or parasite 0.0239497 1 Thaps_bicluster_0061
GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolism 0.0396209 1 Thaps_bicluster_0061
GO:0006397 mRNA processing 0.0576102 1 Thaps_bicluster_0061
GO:0006629 lipid metabolism 0.075288 1 Thaps_bicluster_0061
GO:0006468 protein amino acid phosphorylation 0.109477 1 Thaps_bicluster_0061
GO:0015986 ATP synthesis coupled proton transport 0.116953 1 Thaps_bicluster_0061
GO:0006281 DNA repair 0.116953 1 Thaps_bicluster_0061
GO:0006886 intracellular protein transport 0.135954 1 Thaps_bicluster_0061
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