Thaps_bicluster_0090 Residual: 0.39
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_0090 0.39 Thalassiosira pseudonana
Displaying 1 - 31 of 31
10336 DUF3506 superfamily

10336 - DUF3506 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

10336
1094 hypothetical protein

1094 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1094
11564 hypothetical protein

11564 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

11564
1170 hypothetical protein

1170 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1170
1734 hypothetical protein

1734 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1734
20564 hypothetical protein

20564 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20564
20843 hypothetical protein

20843 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20843
20899 (Tp_bHLH2_PAS) regulator [Rayko]

20899 - (Tp_bHLH2_PAS) regulator [Rayko]

GO Terms:

GO:0004871, GO:0007165, GO:0004308

CD Domains:

Go To Gene Page:

20899
20996 (Tp_bZIP18) regulator [Rayko]

20996 - (Tp_bZIP18) regulator [Rayko]

GO Terms:

NA

CD Domains:

Go To Gene Page:

20996
24505 hypothetical protein

24505 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24505
24613 Sad1_UNC

24613 - Sad1_UNC

GO Terms:

GO:0004308

CD Domains:

Go To Gene Page:

24613
24901 (MTS2_2) PRK11893

24901 - (MTS2_2) PRK11893

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004825, GO:0006431

CD Domains:

Go To Gene Page:

24901
2537 Patatin_and_cPLA2 superfamily

2537 - Patatin_and_cPLA2 superfamily

GO Terms:

GO:0003824, GO:0045735

CD Domains:

Go To Gene Page:

2537
260900 PRK05347

260900 - PRK05347

GO Terms:

GO:0004818, GO:0005524, GO:0006424, GO:0004812, GO:0006418, GO:0004819

CD Domains:

Go To Gene Page:

260900
261633 (CTS2) cysS

261633 - (CTS2) cysS

GO Terms:

GO:0004817, GO:0005524, GO:0006423

CD Domains:

Go To Gene Page:

261633
263181 cpn10

263181 - cpn10

GO Terms:

GO:0005524, GO:0006457

CD Domains:

Go To Gene Page:

263181
268070 Trp-synth-beta_II superfamily

268070 - Trp-synth-beta_II superfamily

GO Terms:

GO:0003824, GO:0008152, GO:0004795

CD Domains:

Go To Gene Page:

268070
2714 hypothetical protein

2714 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2714
28865 AarF

28865 - AarF

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

28865
3073 SRPBCC superfamily

3073 - SRPBCC superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

3073
31265 (CAT1_1) Mito_carr

31265 - (CAT1_1) Mito_carr

GO Terms:

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

CD Domains:

Go To Gene Page:

31265
3215 hypothetical protein

3215 - hypothetical protein

GO Terms:

GO:0000074

CD Domains:

Go To Gene Page:

3215
35048 FBP_aldolase_IIA

35048 - FBP_aldolase_IIA

GO Terms:

GO:0004332, GO:0006096, GO:0008270

CD Domains:

Go To Gene Page:

35048
36929 PCBP_like_KH

36929 - PCBP_like_KH

GO Terms:

GO:0003676

CD Domains:

Go To Gene Page:

36929
3698 (Tp_HSF_1a) HSF_DNA-bind

3698 - (Tp_HSF_1a) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

3698
39606 PRK05431

39606 - PRK05431

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004828, GO:0006434

CD Domains:

Go To Gene Page:

39606
42971 valS
4632 hypothetical protein

4632 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4632
8140 hypothetical protein

8140 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8140
8164 hypothetical protein

8164 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8164
980 hypothetical protein

980 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

980
GO ID Go Term p-value q-value Cluster
GO:0006418 tRNA aminoacylation for protein translation 0.000129917 0.356101 Thaps_bicluster_0090
GO:0030036 actin cytoskeleton organization and biogenesis 0.00475501 1 Thaps_bicluster_0090
GO:0016043 cellular component organization and biogenesis 0.00475501 1 Thaps_bicluster_0090
GO:0015995 chlorophyll biosynthetic process 0.00475501 1 Thaps_bicluster_0090
GO:0006431 methionyl-tRNA aminoacylation 0.0094884 1 Thaps_bicluster_0090
GO:0006438 valyl-tRNA aminoacylation 0.0094884 1 Thaps_bicluster_0090
GO:0006423 cysteinyl-tRNA aminoacylation 0.0142002 1 Thaps_bicluster_0090
GO:0006434 seryl-tRNA aminoacylation 0.0142002 1 Thaps_bicluster_0090
GO:0006424 glutamyl-tRNA aminoacylation 0.0188906 1 Thaps_bicluster_0090
GO:0006614 SRP-dependent cotranslational protein-membrane targeting 0.0282075 1 Thaps_bicluster_0090
Log in to post comments