Thaps_bicluster_0007 Residual: 0.40
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_0007 0.40 Thalassiosira pseudonana
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Displaying 1 - 45 of 45
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10048 hypothetical protein

10048 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

10048
11087 hypothetical protein

11087 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11087
11227 hypothetical protein

11227 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

11227
11401 TIM_phosphate_binding superfamily

11401 - TIM_phosphate_binding superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11401
11622 MPP_superfamily superfamily

11622 - MPP_superfamily superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

11622
16612 Aldo_ket_red

16612 - Aldo_ket_red

GO Terms:

GO:0016491

CD Domains:

Go To Gene Page:

16612
20267 hypothetical protein

20267 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20267
2084 (H3) PLN00160

2084 - (H3) PLN00160

GO Terms:

GO:0000786, GO:0003677, GO:0005634, GO:0006334, GO:0007001

CD Domains:

Go To Gene Page:

2084
21309 hypothetical protein

21309 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21309
21351 hypothetical protein

21351 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21351
21607 hypothetical protein

21607 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

21607
22257 hypothetical protein

22257 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

22257
24118 (Tp_Myb1R_SHAQKYF1) regulator [Rayko]

24118 - (Tp_Myb1R_SHAQKYF1) regulator [Rayko]

GO Terms:

GO:0003677, GO:0005634, GO:0004339

CD Domains:

Go To Gene Page:

24118
24364 AarF

24364 - AarF

GO Terms:

GO:0004672, GO:0005524, GO:0006468

CD Domains:

Go To Gene Page:

24364
24760 hypothetical protein

24760 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

24760
2481 Ion_trans

2481 - Ion_trans

GO Terms:

GO:0005267, GO:0006813, GO:0016020, GO:0005249, GO:0005261, GO:0006812, GO:0005216, GO:0006811

CD Domains:

Go To Gene Page:

2481
25112 (Tp_HSF_3.2b) HSF_DNA-bind

25112 - (Tp_HSF_3.2b) HSF_DNA-bind

GO Terms:

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

CD Domains:

Go To Gene Page:

25112
25141 hypothetical protein

25141 - hypothetical protein

GO Terms:

GO:0005515

CD Domains:

Go To Gene Page:

25141
25182 hypothetical protein

25182 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25182
25698 IFRD superfamily

25698 - IFRD superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

25698
25831 hypothetical protein

25831 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

25831
261925 PP2Cc

261925 - PP2Cc

GO Terms:

GO:0003824, 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:

261925
263205 SPFH_prohibitin

263205 - SPFH_prohibitin

GO Terms:

GO:0016020

CD Domains:

Go To Gene Page:

263205
263487 (Tp_AP2-EREBP12_CCHH20) pathogenesis-related transcription factor

263487 - (Tp_AP2-EREBP12_CCHH20) pathogenesis-related transcription factor

GO Terms:

GO:0003700, GO:0005634, GO:0006355

CD Domains:

Go To Gene Page:

263487
263830 RNR_PFL superfamily

263830 - RNR_PFL superfamily

GO Terms:

GO:0005506, GO:0006800, GO:0016491, GO:0003824

CD Domains:

Go To Gene Page:

263830
268657 Pyr_redox_dim

268657 - Pyr_redox_dim

GO Terms:

GO:0006118, GO:0016491, GO:0050660, GO:0015036, GO:0005737, GO:0004148

CD Domains:

Go To Gene Page:

268657
269355 hypothetical protein

269355 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

269355
2987 hypothetical protein

2987 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

2987
32795 Arl2

32795 - Arl2

GO Terms:

GO:0005525, GO:0007264, GO:0006886, GO:0003924, GO:0003925

CD Domains:

Go To Gene Page:

32795
33256 ArsA_ATPase

33256 - ArsA_ATPase

GO Terms:

GO:0005524, GO:0006820, GO:0016020, GO:0015446, GO:0042961

CD Domains:

Go To Gene Page:

33256
34104 FKBP_C

34104 - FKBP_C

GO Terms:

GO:0006457, GO:0003755, GO:0004600, GO:0030051, GO:0042027

CD Domains:

Go To Gene Page:

34104
36689 pyr_form_ly_1

36689 - pyr_form_ly_1

GO Terms:

GO:0003824, GO:0008152, GO:0005737, GO:0006006, GO:0008861

CD Domains:

Go To Gene Page:

36689
38578 (BIP2) HSP70

38578 - (BIP2) HSP70

GO Terms:

GO:0005524

CD Domains:

Go To Gene Page:

38578
5845 hypothetical protein

5845 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

5845
6534 DER1

6534 - DER1

GO Terms:

NA

CD Domains:

Go To Gene Page:

6534
6667 CAS_like superfamily

6667 - CAS_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

6667
6886 TPR_12

6886 - TPR_12

GO Terms:

NA

CD Domains:

Go To Gene Page:

6886
7853 hypothetical protein

7853 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

7853
8327 hypothetical protein

8327 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

8327
9261 HP_PGM_like

9261 - HP_PGM_like

GO Terms:

NA

CD Domains:

Go To Gene Page:

9261
9277 hypothetical protein

9277 - hypothetical protein

GO Terms:

GO:0004339

CD Domains:

Go To Gene Page:

9277
ThpsCp139 (rpl32) ribosomal protein L32

ThpsCp139 - (rpl32) ribosomal protein L32

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCp139
ThpsCs001 (ssra)

ThpsCs001 - (ssra)

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCs001
ThpsCt002 (trnR(ccg))

ThpsCt002 - (trnR(ccg))

GO Terms:

NA

CD Domains:

Go To Gene Page:

ThpsCt002
GO ID Go Term p-value q-value Cluster
GO:0006800 oxygen and reactive oxygen species metabolism 0.0131699 1 Thaps_bicluster_0007
GO:0006820 anion transport 0.0261771 1 Thaps_bicluster_0007
GO:0006006 glucose metabolism 0.0326202 1 Thaps_bicluster_0007
GO:0006811 ion transport 0.0579953 1 Thaps_bicluster_0007
GO:0006813 potassium ion transport 0.0704475 1 Thaps_bicluster_0007
GO:0007001 chromosome organization and biogenesis (sensu Eukaryota) 0.0918683 1 Thaps_bicluster_0007
GO:0006334 nucleosome assembly 0.097903 1 Thaps_bicluster_0007
GO:0007264 small GTPase mediated signal transduction 0.106885 1 Thaps_bicluster_0007
GO:0006812 cation transport 0.133329 1 Thaps_bicluster_0007
GO:0006886 intracellular protein transport 0.164653 1 Thaps_bicluster_0007
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