Thaps_bicluster_0108 Residual: 0.45
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_0108 0.45 Thalassiosira pseudonana
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Displaying 1 - 33 of 33
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10081 MPP_PPP_family

10081 - MPP_PPP_family

GO Terms:

GO:0016787, GO:0008803

CD Domains:

Go To Gene Page:

10081
11879 hypothetical protein

11879 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11879
1951 hypothetical protein

1951 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1951
22548 hypothetical protein

22548 - hypothetical protein

GO Terms:

GO:0008080

CD Domains:

Go To Gene Page:

22548
23274 vWFA superfamily

23274 - vWFA superfamily

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

23274
23420 hypothetical protein

23420 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23420
25160 hypothetical protein

25160 - hypothetical protein

GO Terms:

GO:0004402

CD Domains:

Go To Gene Page:

25160
25881 hypothetical protein

25881 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25881
263535 calmodulin-like protein

263535 - calmodulin-like protein

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

263535
268256 PLN02346

268256 - PLN02346

GO Terms:

GO:0000105, GO:0004635, GO:0004636

CD Domains:

Go To Gene Page:

268256
268271 PRK10867

268271 - PRK10867

GO Terms:

GO:0003723, GO:0005525, GO:0005786, GO:0006614, GO:0008168, GO:0000166, GO:0017111, GO:0006605

CD Domains:

Go To Gene Page:

268271
268544 PLN02465

268544 - PLN02465

GO Terms:

GO:0006118, GO:0016633

CD Domains:

Go To Gene Page:

268544
268644 PRK11824

268644 - PRK11824

GO Terms:

GO:0000175, GO:0003723, GO:0006396, GO:0003676, GO:0000150, GO:0006310, GO:0004654

CD Domains:

Go To Gene Page:

268644
269004 PRTases_typeI

269004 - PRTases_typeI

GO Terms:

GO:0009116

CD Domains:

Go To Gene Page:

269004
269158 Sugar_tr

269158 - Sugar_tr

GO Terms:

GO:0005355, GO:0006810, GO:0016020, GO:0005351, GO:0008643, GO:0005215, GO:0016021, GO:0008733

CD Domains:

Go To Gene Page:

269158
270374 hypothetical protein

270374 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270374
30960 NIF

30960 - NIF

GO Terms:

GO:0000158, GO:0004721, GO:0004723, GO:0004724, GO:0005963, GO:0008420, GO:0008597, GO:0015071, GO:0017018, GO:0017020, GO:0017023, GO:0030357

CD Domains:

Go To Gene Page:

30960
30972 hypothetical protein

30972 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

30972
33558 secA

33558 - secA

GO Terms:

GO:0005524, GO:0006605, GO:0006886, GO:0016020, GO:0017038, GO:0005515

CD Domains:

Go To Gene Page:

33558
34170 M18_DAP

34170 - M18_DAP

GO Terms:

GO:0004250, GO:0005773, GO:0006508, GO:0042576

CD Domains:

Go To Gene Page:

34170
38513 AarF

38513 - AarF

GO Terms:

GO:0004289, GO:0006508, GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

38513
39979 (ITS3) PLN02959

39979 - (ITS3) PLN02959

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004823, GO:0005737, GO:0006412

CD Domains:

Go To Gene Page:

39979
43076 era

43076 - era

GO Terms:

GO:0003676, GO:0005525

CD Domains:

Go To Gene Page:

43076
4900 hypothetical protein

4900 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4900
6010 AP_muniscins_like_MHD

6010 - AP_muniscins_like_MHD

GO Terms:

NA

CD Domains:

Go To Gene Page:

6010
6735 hypothetical protein

6735 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

6735
7805 Aldo_ket_red

7805 - Aldo_ket_red

GO Terms:

GO:0016491, GO:0047681

CD Domains:

Go To Gene Page:

7805
8153 hypothetical protein

8153 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8153
9135 Abhydrolase_6

9135 - Abhydrolase_6

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

9135
9976 hypothetical protein

9976 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

9976
ThpsCp031 (rps2) ribosomal protein S2

ThpsCp031 - (rps2) ribosomal protein S2

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp031
ThpsCp033 (rpoC1) RNA polymerase beta' subunit

ThpsCp033 - (rpoC1) RNA polymerase beta' subunit

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp033
ThpsCp093 (groEL) chaperonin GroEL

ThpsCp093 - (groEL) chaperonin GroEL

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp093
GO ID Go Term p-value q-value Cluster
GO:0006605 protein targeting 0.000241675 0.660497 Thaps_bicluster_0108
GO:0017038 protein import 0.00351458 1 Thaps_bicluster_0108
GO:0009116 nucleoside metabolism 0.0209137 1 Thaps_bicluster_0108
GO:0006614 SRP-dependent cotranslational protein-membrane targeting 0.0209137 1 Thaps_bicluster_0108
GO:0000105 histidine biosynthesis 0.027793 1 Thaps_bicluster_0108
GO:0008643 carbohydrate transport 0.0481589 1 Thaps_bicluster_0108
GO:0006310 DNA recombination 0.0648231 1 Thaps_bicluster_0108
GO:0006886 intracellular protein transport 0.17401 1 Thaps_bicluster_0108
GO:0006418 tRNA aminoacylation for protein translation 0.182788 1 Thaps_bicluster_0108
GO:0006396 RNA processing 0.185694 1 Thaps_bicluster_0108
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