Thaps_bicluster_0114 Residual: 0.48
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_0114 0.48 Thalassiosira pseudonana
" class="views-fluidgrid-wrapper clear-block">
Displaying 1 - 40 of 40
" class="views-fluidgrid-wrapper clear-block">
10498 hypothetical protein

10498 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10498
105 PTZ00248

105 - PTZ00248

GO Terms:

GO:0003723, GO:0003743, GO:0005850, GO:0006412

CD Domains:

Go To Gene Page:

105
11178 Thioredoxin_like superfamily

11178 - Thioredoxin_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11178
11836 hypothetical protein

11836 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11836
13653 TCP1_eta

13653 - TCP1_eta

GO Terms:

GO:0005515, GO:0005524, GO:0044267

CD Domains:

Go To Gene Page:

13653
16746 Mito_carr

16746 - Mito_carr

GO Terms:

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

CD Domains:

Go To Gene Page:

16746
18104 MutY

18104 - MutY

GO Terms:

GO:0003677, GO:0006284

CD Domains:

Go To Gene Page:

18104
1827 Tic22 superfamily

1827 - Tic22 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

1827
21003 hypothetical protein

21003 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21003
21455 hypothetical protein

21455 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21455
21475 hypothetical protein

21475 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21475
21863 Glyco_transf_15 superfamily

21863 - Glyco_transf_15 superfamily

GO Terms:

GO:0005215, GO:0006810

CD Domains:

Go To Gene Page:

21863
22162 hypothetical protein

22162 - hypothetical protein

GO Terms:

GO:0003910

CD Domains:

Go To Gene Page:

22162
23452 hypothetical protein

23452 - hypothetical protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

23452
24084 TCP1_delta

24084 - TCP1_delta

GO Terms:

GO:0005515, GO:0005524, GO:0044267, GO:0003763

CD Domains:

Go To Gene Page:

24084
24127 TIGR00238 superfamily

24127 - TIGR00238 superfamily

GO Terms:

GO:0003824, GO:0005506

CD Domains:

Go To Gene Page:

24127
24601 CbiX_SirB_N

24601 - CbiX_SirB_N

GO Terms:

NA

CD Domains:

Go To Gene Page:

24601
25130 PGDH_like_3

25130 - PGDH_like_3

GO Terms:

GO:0008152, GO:0016597, GO:0006564, GO:0016616, GO:0004617

CD Domains:

Go To Gene Page:

25130
25177 TLC superfamily

25177 - TLC superfamily

GO Terms:

GO:0005471, GO:0005524, GO:0006810, GO:0016021

CD Domains:

Go To Gene Page:

25177
25355 (SEC61-1) PTZ00219

25355 - (SEC61-1) PTZ00219

GO Terms:

GO:0009306, GO:0015450, GO:0016020

CD Domains:

Go To Gene Page:

25355
262457 60KD_IMP

262457 - 60KD_IMP

GO Terms:

GO:0016021, GO:0051205

CD Domains:

Go To Gene Page:

262457
263640 PRK05031

263640 - PRK05031

GO Terms:

GO:0008757

CD Domains:

Go To Gene Page:

263640
264879 UPF0081

264879 - UPF0081

GO Terms:

GO:0006139, GO:0016788

CD Domains:

Go To Gene Page:

264879
268062 PRK14293

268062 - PRK14293

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

Go To Gene Page:

268062
268080 NTF2_like superfamily

268080 - NTF2_like superfamily

GO Terms:

GO:0005622, GO:0005634, GO:0006606, GO:0008565

CD Domains:

Go To Gene Page:

268080
268519 hypothetical protein

268519 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

268519
29008 thrA

29008 - thrA

GO Terms:

GO:0008652, GO:0004072, GO:0004412, GO:0008152, GO:0016597

CD Domains:

Go To Gene Page:

29008
29166 Peptidase_S28 superfamily

29166 - Peptidase_S28 superfamily

GO Terms:

GO:0003824, GO:0006508, GO:0008236, GO:0004188

CD Domains:

Go To Gene Page:

29166
31424 (AAT2) Aminotran_1_2

31424 - (AAT2) Aminotran_1_2

GO Terms:

GO:0006520, GO:0008483, GO:0009058, GO:0016769, GO:0004069

CD Domains:

Go To Gene Page:

31424
32252 (RPI2) RPI_A

32252 - (RPI2) RPI_A

GO Terms:

GO:0004751, GO:0009052

CD Domains:

Go To Gene Page:

32252
33653 GrpE

33653 - GrpE

GO Terms:

GO:0000774, GO:0006457, GO:0042803, GO:0051087

CD Domains:

Go To Gene Page:

33653
39255 PLN02734

39255 - PLN02734

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004820, GO:0006426, GO:0006412, GO:0009345

CD Domains:

Go To Gene Page:

39255
39470 PTZ00132

39470 - PTZ00132

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0015031

CD Domains:

Go To Gene Page:

39470
40107 (ief5) PLN03107

40107 - (ief5) PLN03107

GO Terms:

GO:0003743, GO:0006413

CD Domains:

Go To Gene Page:

40107
40774 (ALATS2) PLN02900

40774 - (ALATS2) PLN02900

GO Terms:

GO:0004813, GO:0005524, GO:0006419

CD Domains:

Go To Gene Page:

40774
5334 RusA

5334 - RusA

GO Terms:

GO:0000287, GO:0006281, GO:0006310

CD Domains:

Go To Gene Page:

5334
55 hypothetical protein

55 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

55
6190 hypothetical protein

6190 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6190
7368 FAD_binding_7 superfamily

7368 - FAD_binding_7 superfamily

GO Terms:

GO:0003913, GO:0006281

CD Domains:

Go To Gene Page:

7368
GO ID Go Term p-value q-value Cluster
GO:0044267 cellular protein metabolism 0.00367225 1 Thaps_bicluster_0114
GO:0006419 alanyl-tRNA aminoacylation 0.0131889 1 Thaps_bicluster_0114
GO:0006426 glycyl-tRNA aminoacylation 0.0131889 1 Thaps_bicluster_0114
GO:0009052 pentose-phosphate shunt, non-oxidative branch 0.0131889 1 Thaps_bicluster_0114
GO:0006606 protein-nucleus import 0.0197201 1 Thaps_bicluster_0114
GO:0051205 protein insertion into membrane 0.0262093 1 Thaps_bicluster_0114
GO:0009306 protein secretion 0.0262093 1 Thaps_bicluster_0114
GO:0006281 DNA repair 0.0366287 1 Thaps_bicluster_0114
GO:0006284 base-excision repair 0.0390631 1 Thaps_bicluster_0114
GO:0006564 L-serine biosynthesis 0.0580362 1 Thaps_bicluster_0114
Log in to post comments