Thaps_bicluster_0095 Residual: 0.37
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_0095 0.37 Thalassiosira pseudonana
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Displaying 1 - 29 of 29
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10803 (Tp_HSF_2.4c) regulator [Rayko]

10803 - (Tp_HSF_2.4c) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

10803
10916 hypothetical protein

10916 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10916
1457 hypothetical protein

1457 - hypothetical protein

GO Terms:

GO:0003824, GO:0004725, GO:0004727

CD Domains:

Go To Gene Page:

1457
17031 PI3Kc_like superfamily

17031 - PI3Kc_like superfamily

GO Terms:

GO:0016773

CD Domains:

Go To Gene Page:

17031
20732 PKc_like superfamily

20732 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

20732
21538 PLN02666

21538 - PLN02666

GO Terms:

GO:0016787, GO:0003824, GO:0017168

CD Domains:

Go To Gene Page:

21538
21576 hypothetical protein

21576 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

21576
21676 DUF2252 superfamily

21676 - DUF2252 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21676
21752 hypothetical protein

21752 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21752
22355 hypothetical protein

22355 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22355
22932 (Tp_HSF_4.2f) HSF_DNA-bind

22932 - (Tp_HSF_4.2f) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

22932
23562 hypothetical protein

23562 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23562
23894 hypothetical protein

23894 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

23894
23988 DUF1800 superfamily

23988 - DUF1800 superfamily

GO Terms:

GO:0003899, GO:0003900, GO:0003901, GO:0003902

CD Domains:

Go To Gene Page:

23988
24231 C2 superfamily

24231 - C2 superfamily

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

24231
25015 CAP10 superfamily

25015 - CAP10 superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

25015
25332 (Tp_HSF_2.4g) HSF_DNA-bind superfamily

25332 - (Tp_HSF_2.4g) HSF_DNA-bind superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

25332
261472 WD40 superfamily

261472 - WD40 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

261472
261678 CYCc

261678 - CYCc

GO Terms:

GO:0007242, GO:0009190, GO:0016849

CD Domains:

Go To Gene Page:

261678
263403 YafJ

263403 - YafJ

GO Terms:

GO:0008152

CD Domains:

Go To Gene Page:

263403
268351 (Tp_Hox2) regulator [Rayko]

268351 - (Tp_Hox2) regulator [Rayko]

GO Terms:

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

CD Domains:

Go To Gene Page:

268351
269496 (Tp_TAZ3_PHD1) KAT11 superfamily

269496 - (Tp_TAZ3_PHD1) KAT11 superfamily

GO Terms:

GO:0003712, GO:0005634, GO:0006355, GO:0003677, GO:0003713, GO:0045449

CD Domains:

Go To Gene Page:

269496
33039 SpoT

33039 - SpoT

GO Terms:

GO:0003824, GO:0015969, GO:0008728

CD Domains:

Go To Gene Page:

33039
36301 HMG-box

36301 - HMG-box

GO Terms:

GO:0000785, GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

36301
40445 Dynein_heavy superfamily

40445 - Dynein_heavy superfamily

GO Terms:

GO:0004197, GO:0006508, GO:0003777, GO:0007018, GO:0030286, GO:0008567

CD Domains:

Go To Gene Page:

40445
9571 (Tp_HSF_3.2i) HSF_DNA-bind

9571 - (Tp_HSF_3.2i) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

9571
GO ID Go Term p-value q-value Cluster
GO:0006355 regulation of transcription, DNA-dependent 0.00000601 0.0166013 Thaps_bicluster_0095
GO:0015969 guanosine tetraphosphate metabolism 0.0148069 1 Thaps_bicluster_0095
GO:0045449 regulation of transcription 0.0221325 1 Thaps_bicluster_0095
GO:0009190 cyclic nucleotide biosynthesis 0.0789128 1 Thaps_bicluster_0095
GO:0006260 DNA replication 0.122739 1 Thaps_bicluster_0095
GO:0007242 intracellular signaling cascade 0.145514 1 Thaps_bicluster_0095
GO:0007018 microtubule-based movement 0.148722 1 Thaps_bicluster_0095
GO:0016567 protein ubiquitination 0.25691 1 Thaps_bicluster_0095
GO:0006468 protein amino acid phosphorylation 0.556068 1 Thaps_bicluster_0095
GO:0006508 proteolysis and peptidolysis 0.669444 1 Thaps_bicluster_0095
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