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 Gene Rank Value Type Filtered Interaction Map Network Comparison Type red network_comparison green
Results: HTML CSV LaTeX Showing element 551 to 600 of 19268 in total
Value Type  : Measured
description
Rank
Filtered
Interaction Map
Network Comparison Type
red
network_comparison
green
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] 1616 1 Low confidence Divided 8028.49 1.03355 8297.84
2028 High confidence 10243.4 1.05746 9686.82
5t4 oncofetal trophoblast glycoprotein; 5t4-antigen. [refseq;acc:nm_006670] 3782 Low confidence Subtracted 8100.23 193.18 8293.41
3827 Divided 1.02385
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] 4269 Subtracted 8966.91 169.06 8797.85
4457 Divided 1.01922
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] 4271 Subtracted 169.06
4459 Divided 1.01922
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] 4268 Subtracted 169.06
4456 Divided 1.01922
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] 4272 Subtracted 169.06
4460 Divided 1.01922
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858] 764 High confidence 4250.18 1.11269 4729.12
1268 Subtracted 478.94
3063 Low confidence 8126.59 220.91 8347.5
3242 Divided 1.02718
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237] 763 High confidence 4250.54 1.11272 4729.67
1265 Subtracted 479.13
3073 Low confidence 8125.87 220.64 8346.51
3253 Divided 1.02715
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] 759 High confidence 4254.62 1.11315 4736.03
1257 Subtracted 481.41
3111 Low confidence 8133.29 219.79 8353.08
3273 Divided 1.02702
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209] 1276 High confidence Subtracted 5988.06 476.88 6464.94
1339 Divided 1.07964
2463 Low confidence Subtracted 8051.33 240.7 8292.03
2615 Divided 1.0299
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] 1597 High confidence Subtracted 6038.46 425.44 6463.9
1627 Divided 1.07046
2103 Low confidence Subtracted 8107.56 252.7 8360.26
2278 Divided 1.03117
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393] 2904 High confidence 0.00001 1 0.00001
Subtracted 0 0 0
4820 Low confidence 8463.74 80.97 8544.71
4838 Divided 1.00957
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] 1313 High confidence 5457.14 1.08112 5899.85
1461 Subtracted 442.71
1772 Low confidence 8149.97 262.85 8412.82
1983 Divided 1.03225
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993] 1682 High confidence Subtracted 6011.57 403.41 6414.98
1751 Divided 1.06711
3889 Low confidence Subtracted 8092.22 187.12 8279.34
3927 Divided 1.02312
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] 2258 High confidence 5150.31 1.04616 5388.05
2317 Subtracted 237.74
3356 Low confidence 7970.4 212.08 8182.48
3362 Divided 1.02661
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 41 0 High confidence Subtracted 6131.07 608.27 6739.34
206 Low confidence 3950.79 281.02 4231.81

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/