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	green	red	network_comparison

Results: HTML CSV LaTeX

Showing element 251 to 300 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Interaction Map	green	red	network_comparison
126	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	High confidence	114	94	1.21277
	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Low confidence	179.639	191.688	1.06707
127	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	High confidence	114	94	1.21277
	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	Low confidence	190.88	203.678	1.06705
128	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	High confidence	114	94	1.21277
	striatin. [swissprot;acc:o43815]	Low confidence	200.796	214.085	1.06618
129	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]		235.572	220.969	1.06609
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	High confidence	114	94	1.21277
130	protein hspc134 (protein cda04). [swissprot;acc:q9by43]
	striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166]	Low confidence	211.529	225.495	1.06602
131	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	High confidence	242.562	294.053	1.21228
	striatin 4 (zinedin). [swissprot;acc:q9nrl3]	Low confidence	200.825	213.878	1.065
132	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]		206.997	220.268	1.06411
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	High confidence	290	350	1.2069
133	prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490]	Low confidence	206.997	220.268	1.06411
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	High confidence	290	350	1.2069
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
	transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995]	Low confidence	205.431	218.561	1.06391
135	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	High confidence	290	350	1.2069
	neuronal protein np25. [swissprot;acc:q9ui15]	Low confidence	205.57	218.66	1.06368
136	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	High confidence	290	350	1.2069
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	Low confidence	190.854	202.996	1.06362
137	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	High confidence	290	350	1.2069
	testican-3 precursor. [swissprot;acc:q9bq16]	Low confidence	234.389	220.395	1.0635
138	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	High confidence	234.204	194.372	1.20493
	transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802]	Low confidence	205.4	218.36	1.0631
139	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	High confidence	225.68	271.752	1.20415
	testican-1 precursor (spock protein). [swissprot;acc:q08629]	Low confidence	234.111	220.254	1.06291
140	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	High confidence	49	59	1.20408
	testican-2 precursor. [swissprot;acc:q92563]	Low confidence	234.047	220.222	1.06278
141	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	High confidence	49	59	1.20408
	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	Low confidence	206.52	219.344	1.0621
142	endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7]		198.732	211.056	1.06201
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	High confidence	49	59	1.20408
143	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Low confidence	198.732	211.056	1.06201
144	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]
	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	High confidence	319.651	265.686	1.20312
145	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]		319.546	265.639	1.20293
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Low confidence	198.732	211.056	1.06201
146	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	High confidence	319.531	265.632	1.20291
	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	Low confidence	213.661	226.892	1.06193
147	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	High confidence	42.3003	50.7983	1.2009
	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	Low confidence	206.507	219.273	1.06182
148	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	High confidence	247.559	296.677	1.19841
	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Low confidence	198.33	210.579	1.06176
149	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	High confidence	170	142	1.19718
	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Low confidence	198.33	210.579	1.06176
150	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	High confidence	46	55	1.19565
	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350]	Low confidence	194.554	206.516	1.06148

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.