Thaps_bicluster_0078 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_0078 0.42 Thalassiosira pseudonana
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Displaying 1 - 42 of 42
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11091 PKc_like superfamily

11091 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

11091
11208 MPP_superfamily superfamily

11208 - MPP_superfamily superfamily

GO Terms:

GO:0016787, GO:0004339

CD Domains:

Go To Gene Page:

11208
12191 hypothetical protein

12191 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

12191
20572 hypothetical protein

20572 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20572
20637 SNc

20637 - SNc

GO Terms:

GO:0003676, GO:0004518

CD Domains:

Go To Gene Page:

20637
21290 (AGPR) PRK11863

21290 - (AGPR) PRK11863

GO Terms:

GO:0003942, GO:0006526, GO:0005737

CD Domains:

Go To Gene Page:

21290
21856 hypothetical protein

21856 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

21856
2247 PLN02369

2247 - PLN02369

GO Terms:

NA

CD Domains:

Go To Gene Page:

2247
22554 hypothetical protein

22554 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22554
22851 hypothetical protein

22851 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22851
23058 MPP_superfamily superfamily

23058 - MPP_superfamily superfamily

GO Terms:

GO:0003887, GO:0003889, GO:0003890, GO:0003891, GO:0003893, GO:0003894, GO:0003895, GO:0015999, GO:0016000, GO:0016448, GO:0016449, GO:0016450, GO:0016451, GO:0016452, GO:0019984

CD Domains:

Go To Gene Page:

23058
2335 (Tp_CXC4) TCR

2335 - (Tp_CXC4) TCR

GO Terms:

GO:0008766, GO:0016881, GO:0018169

CD Domains:

Go To Gene Page:

2335
23626 Hydrolase_3

23626 - Hydrolase_3

GO Terms:

GO:0003677, GO:0005634, GO:0003824, GO:0008152

CD Domains:

Go To Gene Page:

23626
23967 MFS

23967 - MFS

GO Terms:

NA

CD Domains:

Go To Gene Page:

23967
24025 hypothetical protein

24025 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24025
24333 hypothetical protein

24333 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24333
25235 hypothetical protein

25235 - hypothetical protein

GO Terms:

GO:0003677, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

25235
2573 hypothetical protein

2573 - hypothetical protein

GO Terms:

GO:0005743, GO:0006118, GO:0016651

CD Domains:

Go To Gene Page:

2573
261293 importin beta-3 subunit, ran-binding protein 5

261293 - importin beta-3 subunit, ran-binding protein 5

GO Terms:

NA

CD Domains:

Go To Gene Page:

261293
262204 Nudix_Hydrolase superfamily

262204 - Nudix_Hydrolase superfamily

GO Terms:

GO:0008484, GO:0018741

CD Domains:

Go To Gene Page:

262204
262480 MFS

262480 - MFS

GO Terms:

GO:0015520, GO:0015904, GO:0016021

CD Domains:

Go To Gene Page:

262480
262513 (RPA2_2) RFA2

262513 - (RPA2_2) RFA2

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

262513
262729 DUF2870

262729 - DUF2870

GO Terms:

NA

CD Domains:

Go To Gene Page:

262729
263816 SNF2_N

263816 - SNF2_N

GO Terms:

GO:0003677, GO:0005524, GO:0000785, GO:0003682, GO:0005634, GO:0006333, GO:0008026, GO:0003676, GO:0004386

CD Domains:

Go To Gene Page:

263816
264043 (MYB15) MYB DNA binding protein/ transcription factor-like protein

264043 - (MYB15) MYB DNA binding protein/ transcription factor-like protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

264043
2728 hypothetical protein

2728 - hypothetical protein

GO Terms:

GO:0003677, GO:0006355, GO:0016998

CD Domains:

Go To Gene Page:

2728
3020 hypothetical protein

3020 - hypothetical protein

GO Terms:

GO:0004672, GO:0004682, GO:0004691, GO:0005952, GO:0005956, GO:0008603, GO:0008605

CD Domains:

Go To Gene Page:

3020
36202 PKc_like superfamily

36202 - PKc_like superfamily

GO Terms:

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

CD Domains:

Go To Gene Page:

36202
37523 S_TKc

37523 - S_TKc

GO Terms:

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

CD Domains:

Go To Gene Page:

37523
4756 hypothetical protein

4756 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4756
7293 hypothetical protein

7293 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7293
7729 hypothetical protein

7729 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

7729
7798 hypothetical protein

7798 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7798
7800 hypothetical protein

7800 - hypothetical protein

GO Terms:

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

CD Domains:

Go To Gene Page:

7800
8573 hypothetical protein

8573 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8573
9091 SEC14

9091 - SEC14

GO Terms:

GO:0004725, GO:0004727

CD Domains:

Go To Gene Page:

9091
931 FG-GAP_2

931 - FG-GAP_2

GO Terms:

GO:0007155, GO:0007160, GO:0008305

CD Domains:

Go To Gene Page:

931
9652 MDR8

9652 - MDR8

GO Terms:

GO:0008270, GO:0016491

CD Domains:

Go To Gene Page:

9652
9950 hypothetical protein

9950 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

9950
GO ID Go Term p-value q-value Cluster
GO:0006468 protein amino acid phosphorylation 0.00340057 1 Thaps_bicluster_0078
GO:0006333 chromatin assembly or disassembly 0.0123506 1 Thaps_bicluster_0078
GO:0015904 tetracycline transport 0.0154159 1 Thaps_bicluster_0078
GO:0006270 DNA replication initiation 0.0275887 1 Thaps_bicluster_0078
GO:0016998 cell wall catabolism 0.0275887 1 Thaps_bicluster_0078
GO:0006526 arginine biosynthesis 0.0275887 1 Thaps_bicluster_0078
GO:0007160 cell-matrix adhesion 0.0544657 1 Thaps_bicluster_0078
GO:0007155 cell adhesion 0.089224 1 Thaps_bicluster_0078
GO:0006355 regulation of transcription, DNA-dependent 0.245811 1 Thaps_bicluster_0078
GO:0006118 electron transport 0.57246 1 Thaps_bicluster_0078
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