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

Results: HTML CSV LaTeX

Showing element 851 to 900 of 77072 in total

Filtered  : 0
Value Type  : Measured
Interaction Map  : High confidence

green	network_comparison	Network Comparison Type	red	Rank	description
3340.03	1.23683	Divided	4131.06	177	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]
	791.03	Subtracted		34
3481.87	1.03802	Divided	3614.24	407	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]
	132.37	Subtracted		241
3739.55	1.01259	Divided	3693.07	460	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]
	46.48	Subtracted		372
3775.43	1.10183	Divided	4159.87	307	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]
	384.44	Subtracted		83
3800.29	1.0998	Divided	3455.43	312	dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832]
	344.86	Subtracted		94
3821.87	1.01266	Divided	3774.08	459	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]
	47.79	Subtracted		367
3825.73	1.00785	Divided	3855.78	471	signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]
	30.05	Subtracted		393
3919.25	1.00765	Divided	3889.5	472	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]
				473	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
	29.75	Subtracted		394	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]
				395	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
3952.59	1.07083	Divided	3691.15	342	glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448]
	261.44	Subtracted		125
4091.59	1.03136	Divided	3967.18	424	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]
	124.41	Subtracted		256
4094.09	1.01569	Divided	4158.33	450	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]
	64.24	Subtracted		335
4102.97	1.25656	Divided	3265.25	173	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
	837.72	Subtracted		30
4228.27	1.11341	Divided	3797.57	289	tubby protein homolog. [swissprot;acc:p50607]
	430.7	Subtracted		71
4320.09	1.10075	Divided	4755.32	310	purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491]
	435.23	Subtracted		67
4451	1.0888	Divided	4088	331	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]
	363	Subtracted		89
4543.75	1.19245	Divided	5418.2	205	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]
	874.45	Subtracted		28
4550.64	1.14333	Divided	5202.89	234	wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6]
	652.25	Subtracted		37
4658.69	1.05438	Divided	4912.01	376	protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031]
	253.32	Subtracted		131
4696.36	1.14835	Divided	4089.65	228	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]
	606.71	Subtracted		43
4827.7	1.09839	Divided	5302.7	314	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]
	475	Subtracted		60
5046.33	1.00159	Divided	5038.33	492	3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]
	8	Subtracted		457
5130.58	1.05782	Divided	5427.25	372	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]
	296.67	Subtracted		105
5469.68	1.10224	Divided	4962.34	304	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]
				305	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]
	507.34	Subtracted		50	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]
				51	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]

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.