Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
description Rank Value Type Gene Interaction Map Network Comparison Type red green Filtered network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 19268 in total
Value Type  : Ranked
description
Rank
Interaction Map
Network Comparison Type
red
green
Filtered
network_comparison
54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [swissprot;acc:q15233] 2532 High confidence Divided 190.405 190.812 1 1.00214
2538 Subtracted 0.407
5t4 oncofetal trophoblast glycoprotein; 5t4-antigen. [refseq;acc:nm_006670] 3441 Low confidence 202.475 199.484 2.991
3485 Divided 1.01499
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 (6pf-2-k/fru- 2,6-p2ase liver isozyme) [includes: 6-phosphofructo-2-kinase (ec 2.7.1.105); fructose-2,6-bisphosphatase (ec 3.1.3.46)]. [swissprot;acc:p16118] 3865 194.792 197.306 1.01291
3905 Subtracted 2.514
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2 (6pf-2-k/fru- 2,6-p2ase heart-type isozyme) (pfk-2/fbpase-2) [includes: 6- phosphofructo-2-kinase (ec 2.7.1.105); fructose-2,6-bisphosphatase (ec 3.1.3.46)]. [swissprot;acc:o60825] 3867 Divided 1.01291
3907 Subtracted 2.514
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3 (6pf-2-k/fru- 2,6-p2ase brain/placenta-type isozyme) (ipfk-2) [includes: 6- phosphofructo-2-kinase (ec 2.7.1.105); fructose-2,6-bisphosphatase (ec 3.1.3.46)]. [swissprot;acc:q16875] 3864 Divided 1.01291
3904 Subtracted 2.514
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 (6pf-2-k/fru- 2,6-p2ase testis-type isozyme) [includes: 6-phosphofructo-2-kinase (ec 2.7.1.105); fructose-2,6-bisphosphatase (ec 3.1.3.46)]. [swissprot;acc:q16877] 3868 Divided 1.01291
3908 Subtracted 2.514
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858] 1733 High confidence 240.32 243.085 2.765
1822 Divided 1.01151
2734 Low confidence Subtracted 200.929 197.479 3.45
2739 Divided 1.01747
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237] 1737 High confidence Subtracted 240.32 243.069 2.749
1830 Divided 1.01144
2743 Low confidence Subtracted 200.94 197.499 3.441
2769 Divided 1.01742
6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813] 1777 High confidence Subtracted 240.317 242.881 2.564
1883 Divided 1.01067
2695 Low confidence Subtracted 200.868 197.403 3.465
2706 Divided 1.01755
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209] 1909 Subtracted 201.484 197.59 3.894
1923 Divided 1.01971
2269 High confidence Subtracted 213.642 214.801 1.159
2274 Divided 1.00542
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] 1577 Subtracted 216.891 220.432 3.541
1584 Divided 1.01633
2807 Low confidence 200.157 196.756 1.01729
2850 Subtracted 3.401
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393] 2904 High confidence Divided 0.00001 0.00001 1
Subtracted 0 0 0
4128 Low confidence Divided 198.355 196.271 1.01062
4172 Subtracted 2.084
60 kda heat shock protein, mitochondrial precursor (hsp60) (60 kda chaperonin) (cpn60) (heat shock protein 60) (hsp-60) (mitochondrial matrix protein p1) (p60 lymphocyte protein) (hucha60). [swissprot;acc:p10809] 2574 High confidence 222.305 222.64 0.335
2588 Divided 1.00151
2591 Low confidence 199.427 195.908 1.01796
2609 Subtracted 3.519
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993] 808 High confidence 223.186 213.912 9.274
826 Divided 1.04335
3722 Low confidence 200.338 197.651 1.01359
3751 Subtracted 2.687
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] 1022 High confidence 226.203 232.855 6.652
1092 Divided 1.02941
3894 Low confidence Subtracted 202.202 199.673 2.529
3897 Divided 1.01267
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 233 High confidence 9586.97 10560 0 1.1015
253 Subtracted 973.03

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/