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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Gene description Filtered Value Type Network Comparison Type Rank network_comparison Interaction Map green red
Results: HTML CSV LaTeX Showing element 2530 to 2579 of 9634 in total
Value Type  : Ranked
Network Comparison Type  : Divided
description
Filtered
Rank
network_comparison
Interaction Map
green
red
double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279] 1 5047 1 Low confidence 0.00001 0.00001
double-stranded rna-specific adenosine deaminase (ec 3.5.4.-) (drada) (136 kda double-stranded rna binding protein) (p136) (k88dsrbp). [swissprot;acc:p55265] 3947 1.01234 199.431 201.891
double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563] 0 328 1.10742 8611 9536
1 3949 1.01234 199.431 201.891
doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602] 2674 1.01765 197.566 201.053
2725 1.00034 High confidence 216.569 216.496
doublesex and mab-3 related transcription factor 3; testis-specific protein; dmrt-like family a3. [refseq;acc:nm_021240] 2491 1.01823 Low confidence 195.131 198.688
3187 1 High confidence 0.00001 0.00001
down syndrome cell adhesion molecule like 1; downs syndrome cell adhesion molecule like 1. [refseq;acc:nm_020693] 3806 1.01327 Low confidence 208.959 206.222
down syndrome cell adhesion molecule precursor (chd2). [swissprot;acc:o60469] 3807
down-regulated in metastasis. [refseq;acc:nm_014503] 787 1.04685 High confidence 233.508 244.447
2302 1.01871 Low confidence 200.505 204.257
downstream of son gene protein (b17). [swissprot;acc:q9nyp3] 4085 1.01096 199.573 201.76
dpy-30-like protein. [swissprot;acc:q9c005] 1815 1.01164 High confidence 217.926 220.462
2611 1.01785 Low confidence 194.597 198.07
dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442] 1421 1.02171 197.991 202.29
1468 1.01954 High confidence 207.937 212.001
drebrin (developmentally regulated brain protein). [swissprot;acc:q16643] 3333 1.01559 Low confidence 199.697 202.81
dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434] 249 1.0468 201.076 210.487
dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080] 239 1.04684 201.086 210.504
dual specificity mitogen-activated protein kinase kinase 1 (ec 2.7.1.-) (map kinase kinase 1) (mapkk 1) (erk activator kinase 1) (mapk/erk kinase 1) (mek1). [swissprot;acc:q02750] 2069 1.0081 High confidence 215.807 217.555
2320 1.01866 Low confidence 196.797 200.469
dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [swissprot;acc:p36507] 2072 1.0081 High confidence 215.807 217.555
2311 1.01868 Low confidence 196.755 200.43
dual specificity mitogen-activated protein kinase kinase 3 (ec 2.7.1.-) (map kinase kinase 3) (mapkk 3) (mapk/erk kinase 3). [swissprot;acc:p46734] 2385 1.00395 High confidence 209.767 210.595
3898 1.01266 Low confidence 197.647 200.15
dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985] 33 1.17068 246.125 210.241
2326 1.00468 High confidence 219.05 220.076
dual specificity mitogen-activated protein kinase kinase 6 (ec 2.7.1.-) (map kinase kinase 6) (mapkk 6) (mapk/erk kinase 6) (sapkk3). [swissprot;acc:p52564] 2384 1.00397 209.737 210.57
3878 1.01278 Low confidence 197.426 199.949
dual specificity mitogen-activated protein kinase kinase 7 (ec 2.7.1.-) (map kinase kinase 7) (mapkk 7) (mapk/erk kinase 7) (jnk activating kinase 2) (c-jun n-terminal kinase kinase 2) (jnk kinase 2) (jnkk 2). [swissprot;acc:o14733] 2139 1.00696 High confidence 222.788 221.248
4641 1.0065 Low confidence 202.2 203.514
dual specificity protein kinase ttk (ec 2.7.1.-) (pyt). [swissprot;acc:p33981] 4993 1.00036 193.722 193.792
dual specificity protein phosphatase 1 (ec 3.1.3.48) (ec 3.1.3.16) (map kinase phosphatase-1) (mkp-1) (protein-tyrosine phosphatase cl100) (dual specificity protein phosphatase hvh1). [swissprot;acc:p28562] 1881 1.01983 196.072 199.96
dual specificity protein phosphatase 10 (ec 3.1.3.48) (ec 3.1.3.16) (mitogen-activated protein kinase phosphatase 5) (map kinase phosphatase 5) (mkp-5). [swissprot;acc:q9y6w6] 2391 1.0185 196.625 200.263
dual specificity protein phosphatase 11 (ec 3.1.3.48) (rna/rnp complex-intereracting phosphatase) (phosphatase that interacts with rna/rnp complex 1). [swissprot;acc:o75319] 2926 1 High confidence 0.00001 0.00001
3709 1.01371 Low confidence 199.413 202.147
dual specificity protein phosphatase 13 (ec 3.1.3.48) (ec 3.1.3.16) (testis- and skeletal-muscle-specific dsp). [swissprot;acc:q9uii6] 1609 1.02088 195.607 199.691
dual specificity protein phosphatase 14 (ec 3.1.3.48) (ec 3.1.3.16) (mitogen-activated protein kinase phosphatase 6) (map kinase phosphatase 6) (mkp-6) (mkp-1 like protein tyrosine phosphatase) (mkp-l). [swissprot;acc:o95147] 1939 1.01968 196.626 200.496
dual specificity protein phosphatase 15 (ec 3.1.3.48) (ec 3.1.3.16). [swissprot;acc:q9h1r2] 1605 1.02088 195.607 199.691
dual specificity protein phosphatase 16 (ec 3.1.3.48) (ec 3.1.3.16) (mitogen-activated protein kinase phosphatase 7) (map kinase phosphatase 7) (mkp-7). [swissprot;acc:q9by84] 1882 1.01983 196.074 199.962
dual specificity protein phosphatase 18 (ec 3.1.3.48) (low molecular weight dual specificity phosphatase 20). [swissprot;acc:q8nej0] 1892 1.0198 198.553 202.485
dual specificity protein phosphatase 2 (ec 3.1.3.48) (ec 3.1.3.16) (dual specificity protein phosphatase pac-1). [swissprot;acc:q05923] 1886 1.01982 196.074 199.961
dual specificity protein phosphatase 4 (ec 3.1.3.48) (ec 3.1.3.16) (mitogen-activated protein kinase phosphatase-2) (map kinase phosphatase-2) (mkp-2) (dual specificity protein phosphatase hvh2). [swissprot;acc:q13115] 1889 196.073 199.96
dual specificity protein phosphatase 5 (ec 3.1.3.48) (ec 3.1.3.16) (dual specificity protein phosphatase hvh3). [swissprot;acc:q16690] 1607 1.02088 195.607 199.691
dual specificity protein phosphatase 6 (ec 3.1.3.48) (ec 3.1.3.16) (mitogen-activated protein kinase phosphatase 3) (map kinase phosphatase 3) (mkp-3) (dual specificity protein phosphatase pyst1). [swissprot;acc:q16828] 1887 1.01982 196.077 199.964
dual-specificity tyrosine-phosphorylation regulated kinase 1a (ec 2.7.1.-) (protein kinase minibrain homolog) (mnbh) (hp86) (dual specificity yak1-related kinase). [swissprot;acc:q13627] 1800 1.0118 High confidence 214.481 217.011
4753 1.00514 Low confidence 203.265 204.31
dual-specificity tyrosine-phosphorylation regulated kinase 1b (ec 2.7.1.-) (mirk protein kinase). [swissprot;acc:q9y463] 1803 1.0118 High confidence 214.481 217.011
4755 1.00514 Low confidence 203.266 204.311

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.
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