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

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Showing element 501 to 550 of 77072 in total

Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided

Rank	description	Interaction Map	network_comparison	red	green
251	keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]	High confidence	1.13498	1225.08	1079.38
	zinc finger protein 74 (hznf7). [swissprot;acc:q16587]	Low confidence	1.19447	2352.49	1969.49
252	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]	High confidence	1.13498	1225.08	1079.38
	zinc finger protein 285. [refseq;acc:nm_152354]	Low confidence	1.19447	2352.38	1969.39
253	espin. [refseq;acc:nm_031475]	High confidence	1.13498	1225.07	1079.38
	zinc finger protein 117 (zinc finger protein hpf9) (fragment). [swissprot;acc:q03924]	Low confidence	1.19447	2352.42	1969.43
254	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	High confidence	1.13461	1318.22	1495.66
	zinc finger protein 141. [swissprot;acc:q15928]	Low confidence	1.19447	2352.42	1969.43
255	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	High confidence	1.1346	1317.84	1495.22
	zinc finger protein 197 (znf20). [swissprot;acc:o14709]	Low confidence	1.19446	2352.58	1969.57
256	keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191]	High confidence	1.13418	1224.65	1079.77
	similar to zinc finger protein 85 (zinc finger protein hpf4) (htf1). [refseq;acc:nm_033196]	Low confidence	1.19446	2352.58	1969.57
257	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	High confidence	1.13358	861.401	759.896
	zinc finger protein mgc21738. [refseq;acc:nm_145044]	Low confidence	1.19445	2352.73	1969.72
258	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	High confidence	1.13048	1183.16	1337.54
	zinc finger protein 257 (bone marrow zinc finger 4) (bmzf-4). [swissprot;acc:q9y2q1]	Low confidence	1.19445	2352.89	1969.86
259	60s ribosomal protein l23a. [swissprot;acc:p29316]	High confidence	1.1297	1295.49	1463.51
	krueppel-related zinc finger protein 1 (hkr1 protein). [swissprot;acc:p10072]	Low confidence	1.19445	2352.89	1969.86
260	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	High confidence	1.1296	1949.36	2202
	zinc finger protein 354c; krab-zinc finger protein synten. [refseq;acc:nm_014594]	Low confidence	1.19445	2352.69	1969.68
261	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	High confidence	1.12945	1295.81	1463.55
	zinc finger protein zfd25. [swissprot;acc:q9uii5]	Low confidence	1.19445	2352.64	1969.64
262	adenylyl cyclase-associated protein 2 (cap 2). [swissprot;acc:p40123]	High confidence	1.12926	764.479	676.971
	zinc finger protein 44 (zinc finger protein kox7) (gonadotropin inducible transcription repressor-2) (giot-2). [swissprot;acc:p15621]	Low confidence	1.19445	2352.64	1969.64
263	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	High confidence	1.1286	1843	1633
	zinc finger protein 62; likely ortholog of mouse zinc finger protein 62. [refseq;acc:nm_152283]	Low confidence	1.19445	2352.8	1969.78
264	pr-domain zinc finger protein 9. [swissprot;acc:q9nqv7]			2352.69	1969.68
	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993]	High confidence	1.12829	3336.48	2957.12
265	60s ribosomal protein l9. [swissprot;acc:p32969]		1.12375	1685.44	1894.01
	zinc finger protein 221. [swissprot;acc:q9uk13]	Low confidence	1.19445	2352.64	1969.64
266	aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]	High confidence	1.1235	1475.05	1312.91
	zinc finger protein 73 (zinc finger protein 186) (hznf2). [swissprot;acc:o43830]	Low confidence	1.19444	2353	1969.96
267	uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452]	High confidence	1.1235	1475.05	1312.91
	zinc finger protein 354a (transcription factor 17) (zinc finger protein eznf). [swissprot;acc:o60765]	Low confidence	1.19444	2352.95	1969.92
268	far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902]	High confidence	1.12346	604.529	538.094
	zinc finger protein 155. [swissprot;acc:q12901]	Low confidence	1.19444	2352.95	1969.92
269	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	High confidence	1.12309	1217.92	1367.83
	zinc finger protein 2. [refseq;acc:nm_021088]	Low confidence	1.19443	2353.11	1970.07
270	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	High confidence	1.12309	1217.96	1367.88
	zinc finger protein 19 (zinc finger protein kox12) (fragment). [swissprot;acc:p17023]	Low confidence	1.19443	2353.04	1970.01
271	histone h4. [swissprot;acc:p02304]	High confidence	1.12278	21773.1	24446.3
	zinc finger protein zfp-36 (fragment). [swissprot;acc:p16415]	Low confidence	1.19443	2353.27	1970.21
272	60s ribosomal protein l15. [swissprot;acc:p39030]	High confidence	1.12261	846.216	753.793
	zinc finger protein 134. [swissprot;acc:p52741]	Low confidence	1.19442	2353.38	1970.32
273	sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626]	High confidence	1.1218	1410.81	1582.65
	zinc finger protein 337. [swissprot;acc:q9y3m9]	Low confidence	1.19441	2353.42	1970.36
274	brain protein 16. [refseq;acc:nm_016458]	High confidence	1.12172	2155.75	2418.14
	zinc finger protein 358. [swissprot;acc:q9nw07]	Low confidence	1.1944	2353.63	1970.55
275	novel c2h2 type zinc finger protein. [refseq;acc:nm_024325]			2353.74	1970.65
	swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075]	High confidence	1.12172	717.401	804.725

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.