Thaps_bicluster_0020 Residual: 0.47
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_0020 0.47 Thalassiosira pseudonana
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Displaying 1 - 56 of 56
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1135 hypothetical protein

1135 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1135
11391 hypothetical protein

11391 - hypothetical protein

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

11391
11612 AFD_class_I superfamily

11612 - AFD_class_I superfamily

GO Terms:

GO:0003824, GO:0008152, GO:0031177, GO:0048037

CD Domains:

Go To Gene Page:

11612
12130 hypothetical protein

12130 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12130
1444 hypothetical protein

1444 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1444
18775 MORN superfamily

18775 - MORN superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

18775
19094 S_TKc

19094 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

19094
19622 Sedlin_N

19622 - Sedlin_N

GO Terms:

GO:0005478, GO:0005622, GO:0006888

CD Domains:

Go To Gene Page:

19622
19637 hypothetical protein

19637 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

19637
20630 Piwi-like superfamily

20630 - Piwi-like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

20630
2066 hypothetical protein

2066 - hypothetical protein

GO Terms:

GO:0004197, GO:0006508, GO:0008152, GO:0016491, GO:0004339

CD Domains:

Go To Gene Page:

2066
20992 hypothetical protein

20992 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20992
24425 RhaT

24425 - RhaT

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

24425
24576 hypothetical protein

24576 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24576
25159 hypothetical protein

25159 - hypothetical protein

GO Terms:

GO:0005524, GO:0016887

CD Domains:

Go To Gene Page:

25159
25551 hypothetical protein

25551 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25551
25702 hypothetical protein

25702 - hypothetical protein

GO Terms:

GO:0004012

CD Domains:

Go To Gene Page:

25702
261602 ThiF_MoeB_HesA_family

261602 - ThiF_MoeB_HesA_family

GO Terms:

GO:0003824, GO:0004842

CD Domains:

Go To Gene Page:

261602
2671 Nudix_Hydrolase_31

2671 - Nudix_Hydrolase_31

GO Terms:

NA

CD Domains:

Go To Gene Page:

2671
269666 MPN superfamily

269666 - MPN superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

269666
269690 (Tp_Hox1) regulator [Rayko]

269690 - (Tp_Hox1) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

269690
269705 hypothetical protein

269705 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269705
269844 GT1_Gtf_like

269844 - GT1_Gtf_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

269844
270240 hypothetical protein

270240 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270240
3035 hypothetical protein

3035 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

3035
32561 (Tp_CCHH4) DnaJ

32561 - (Tp_CCHH4) DnaJ

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

32561
33067 (Tp_CBF/NF4) CBFD_NFYB_HMF

33067 - (Tp_CBF/NF4) CBFD_NFYB_HMF

GO Terms:

GO:0003677

CD Domains:

Go To Gene Page:

33067
34344 Mito_carr

34344 - Mito_carr

GO Terms:

GO:0005488, GO:0006810, GO:0016020, GO:0005743

CD Domains:

Go To Gene Page:

34344
35182 SET

35182 - SET

GO Terms:

NA

CD Domains:

Go To Gene Page:

35182
3708 hypothetical protein

3708 - hypothetical protein

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

3708
37707 hypothetical protein

37707 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

37707
38194 MPP_PhoA_N

38194 - MPP_PhoA_N

GO Terms:

GO:0009166, GO:0016787, GO:0008253, GO:0017175

CD Domains:

Go To Gene Page:

38194
39143 (ANT1) PTZ00169

39143 - (ANT1) PTZ00169

GO Terms:

GO:0005488, GO:0006810, GO:0016020, GO:0005743, GO:0005215

CD Domains:

Go To Gene Page:

39143
40391 (ENO1) PLN00191

40391 - (ENO1) PLN00191

GO Terms:

GO:0000015, GO:0004634, GO:0006096

CD Domains:

Go To Gene Page:

40391
406 (GOX) FMN_dh

406 - (GOX) FMN_dh

GO Terms:

GO:0006118, GO:0016491, GO:0003973, GO:0008891, GO:0009339

CD Domains:

Go To Gene Page:

406
4084 hypothetical protein

4084 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4084
42965 GlcD

42965 - GlcD

GO Terms:

GO:0006118

CD Domains:

Go To Gene Page:

42965
4971 hypothetical protein

4971 - hypothetical protein

GO Terms:

GO:0008570

CD Domains:

Go To Gene Page:

4971
5579 Hydrolase_4 superfamily

5579 - Hydrolase_4 superfamily

GO Terms:

GO:0003824, GO:0006725, GO:0016787, GO:0004518, GO:0016788, GO:0042578

CD Domains:

Go To Gene Page:

5579
6657 hypothetical protein

6657 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6657
6768 DUF726 superfamily

6768 - DUF726 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6768
6856 (Tp_HSF_1.3f) HSF_DNA-bind superfamily

6856 - (Tp_HSF_1.3f) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

6856
7202 ABCC_MRP_domain1

7202 - ABCC_MRP_domain1

GO Terms:

NA

CD Domains:

Go To Gene Page:

7202
7480 hypothetical protein

7480 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7480
8092 hypothetical protein

8092 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8092
8636 hypothetical protein

8636 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8636
875 Trypsin_2

875 - Trypsin_2

GO Terms:

GO:0004252, GO:0006508

CD Domains:

Go To Gene Page:

875
ThpsCp002 (psaB) photosystem I P700 chlorophyll a apoprotein A2

ThpsCp002 - (psaB) photosystem I P700 chlorophyll a apoprotein A2

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp002
ThpsCp026 (ycf45) hypothetical protein

ThpsCp026 - (ycf45) hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp026
ThpsCp027 (dnaB) DNA replication helicase

ThpsCp027 - (dnaB) DNA replication helicase

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp027
ThpsCp052 (psaI) photosystem I subunit VIII

ThpsCp052 - (psaI) photosystem I subunit VIII

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp052
ThpsCp077 (rpl32) ribosomal protein L32

ThpsCp077 - (rpl32) ribosomal protein L32

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp077
ThpsCp078 (rbcR) LysR transcriptional regulator

ThpsCp078 - (rbcR) LysR transcriptional regulator

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp078
ThpsCp125 (clpC) Clp protease ATP binding subunit

ThpsCp125 - (clpC) Clp protease ATP binding subunit

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp125
ThpsCp138 (rbcR) LysR transcriptional regulator

ThpsCp138 - (rbcR) LysR transcriptional regulator

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp138
ThpsCt028 (trnL(uag)')

ThpsCt028 - (trnL(uag)')

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt028
GO ID Go Term p-value q-value Cluster
GO:0000074 regulation of cell cycle 0.191478 1 Thaps_bicluster_0020
GO:0006118 electron transport 0.23943 1 Thaps_bicluster_0020
GO:0006508 proteolysis and peptidolysis 0.268722 1 Thaps_bicluster_0020
GO:0006355 regulation of transcription, DNA-dependent 0.294119 1 Thaps_bicluster_0020
GO:0006457 protein folding 0.371189 1 Thaps_bicluster_0020
GO:0008152 metabolism 0.425278 1 Thaps_bicluster_0020
GO:0006468 protein amino acid phosphorylation 0.535543 1 Thaps_bicluster_0020
GO:0009166 nucleotide catabolism 0.00701752 1 Thaps_bicluster_0020
GO:0006888 ER to Golgi transport 0.0209137 1 Thaps_bicluster_0020
GO:0006725 aromatic compound metabolism 0.0746894 1 Thaps_bicluster_0020
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