MK5 Microarray Data

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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Rank	Gene	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1894 to 1943 of 3228 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	red	green	network_comparison
1894	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	3598.08	3384.59	1.06308
1895	ruvb-like 1 (ec 3.6.1.-) (49-kda tata box-binding protein-interacting protein) (49 kda tbp-interacting protein) (tip49a) (pontin 52) (nuclear matrix protein 238) (nmp 238) (54 kda erythrocyte cytosolic protein) (ecp-54) (tip60-associated protein 54-alpha) (tap54-alpha). [swissprot;acc:q9y265]	5882.1	6252.66	1.063
1896	m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304]	4521	4805.16	1.06285
1897	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	4590.74	4879.11	1.06282
1898	3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	6885.11	7317.48	1.0628
1899	ruvb-like 2 (ec 3.6.1.-) (48-kda tata box-binding protein-interacting protein) (48-kda tbp-interacting protein) (tip49b) (repressing pontin 52) (reptin 52) (51 kda erythrocyte cytosolic protein) (ecp-51) (tip60-associated protein 54-beta) (tap54-beta) (cgi-46). [swissprot;acc:q9y230]	5786.36	6149.1	1.06269
1900	seven in absentia homolog 2. [refseq;acc:nm_005067]	5399.47	5737.79	1.06266
1901	inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [swissprot;acc:q15181]	5204.25	5530.11	1.06261
1902	inorganic pyrophosphatase 2 isoform 1. [refseq;acc:nm_176869]
1903	aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9]
1904	ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170]
1905	son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890]	7497.96	7967.09	1.06257
1906	mitochondrial ribosomal protein l18. [refseq;acc:nm_014161]	5396.61	5733.93	1.06251
1907	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934]	6858.84	7287.27	1.06246
1908	dc11 protein. [refseq;acc:nm_020186]
1909	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [refseq;acc:nm_003905]
1910	5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557]
1911	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]
1912	ubiquitin-activating enzyme e1 (a1s9 protein). [swissprot;acc:p22314]
1913	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [swissprot;acc:o75746]
1914	melanoma antigen recognized by t cells 2. [refseq;acc:nm_018194]
1915	5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196]
1916	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [swissprot;acc:q9ujs0]
1917	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]
1918	seven in absentia homolog 1. [refseq;acc:nm_003031]	5394.24	5730.73	1.06238
1919	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	5444.6	5783.95	1.06233
1920	basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	6262.66	6652.85	1.0623
1921	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162]
1922	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	5567.41	5914.05	1.06226
1923	brain protein 16. [refseq;acc:nm_016458]	5774.02	6133.01	1.06217
1924	transcriptional adaptor 3-like isoform a. [refseq;acc:nm_006354]	7260.23	7711.3	1.06213
1925	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]		7711.29
1926	frg1 protein (fshd region gene 1 protein). [swissprot;acc:q14331]		7711.3
1927	transcriptional adapter 2-like (ada2-like protein) (kl04p). [swissprot;acc:o75478]
1928	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	7514.8	7980.22	1.06193
1929	pxr2b protein. [refseq;acc:nm_016559]	6996.51	7429.18	1.06184
1930	p28 ing5. [refseq;acc:nm_032329]	5784.06	6141.48	1.06179
1931	ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1]	9946.21	9367.66	1.06176
1932	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	10300	9701.33	1.06171
1933	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]
1934	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	5949.31	6313.1	1.06115
1935	serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [swissprot;acc:o15269]	6167.29	6544.12	1.0611
1936	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	5171.45	5486.96	1.06101
1937	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044]
1938	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]
1939	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	5669.9	6015.75	1.061
1940	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	4450.17	4721.37	1.06094
1941	rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277]	5521.07	5856.93	1.06083
1942	pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]	5805.06	6158.16
1943	p300/cbp-associated factor (ec 2.3.1.-) (p/caf) (histone acetylase pcaf). [swissprot;acc:q92831]	7210.87	7649.23	1.06079

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.