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

Results: HTML CSV LaTeX

Showing element 651 to 700 of 9634 in total

Network Comparison Type

: Divided
Value Type

: Measured

Rank	description	Interaction Map	Filtered	red	network_comparison	green
163	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	High confidence	0	7830.62	1.26442	6193.07
163	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Low confidence		1113.87	1.24677	1388.74
164	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]	High confidence		1711.55	1.26383	1354.26
	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	High confidence	1	23693.7	1.29736	18263
	monocarboxylate transporter 2 (mct 2). [swissprot;acc:o60669]	Low confidence	1	10346.9	1.08291	11204.8
	myotubularin related protein 8. [refseq;acc:nm_017677]		0	3888.6	1.2405	4823.8
165	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]		0	498.07	1.23523	615.233
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	High confidence	1	23693.7	1.29736	18263
	monocarboxylate transporter 3 (mct 3). [swissprot;acc:o95907]	Low confidence	1	10341.7	1.08285	11198.5
	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	High confidence	0	1002.2	1.26251	793.818
166	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	High confidence		5629.62	1.2611	7099.51
	elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9]	Low confidence		1208.65	1.23201	1489.07
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	High confidence	1	23693.7	1.29736	18263
	monocarboxylate transporter 4 (mct 4) (mct 3). [swissprot;acc:o15427]	Low confidence		10325	1.08263	11178.2
167	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Low confidence		12376.5	1.08219	11436.5
	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	High confidence		23693.7	1.29736	18263
	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	Low confidence	0	4088.01	1.23065	3321.82
	transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675]	High confidence	0	331.61	1.26047	417.983
168	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Low confidence	1	12376.4	1.08218	11436.5
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	High confidence	1	23693.7	1.29736	18263
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Low confidence	0	340.73	1.23006	277.003
	transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525]	High confidence	0	334.012	1.2585	420.355
169	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Low confidence	1	12375.5	1.08217	11435.8
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	High confidence	0	244	1.25773	194
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	High confidence	1	23693.7	1.29736	18263
	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]	Low confidence	0	617	1.22812	757.75
170	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]		1	6131.26	1.08194	6633.65
	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]		0	915.62	1.22602	1122.57
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	High confidence	1	23693.7	1.29736	18263
	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	High confidence	0	112.666	1.25772	141.702
171	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	Low confidence	0	222.779	1.22585	181.734
	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	High confidence	1	23693.7	1.29736	18263
	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Low confidence	1	7012.61	1.08158	7584.69
	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]	High confidence	0	112.666	1.25772	141.702
172	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934]	Low confidence	0	556	1.22482	681
	trophinin. [swissprot;acc:q12816]	High confidence	1	23693.7	1.29736	18263
	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Low confidence	1	7012.61	1.08158	7584.69
	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]	High confidence	0	112.666	1.25772	141.702
173	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		1	4579.34	1.29727	5940.64
	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]		0	3265.25	1.25656	4102.97
	dc11 protein. [refseq;acc:nm_020186]	Low confidence	0	556	1.22482	681
	septin 2 (nedd5 protein homolog). [swissprot;acc:q15019]		1	10168.5	1.08145	10996.7
174	adenomatous polyposis coli like. [refseq;acc:nm_005883]		0	2544.19	1.22404	3114.19
	cytohesin 4. [swissprot;acc:q9uia0]		1	12315	1.08115	11390.6
	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	High confidence	0	488.43	1.25423	612.604
	mad protein (max dimerizer). [swissprot;acc:q05195]		1	4455.95	1.2958	5774.03
175	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]		0	1382.5	1.24887	1107
	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	Low confidence	0	2476.1	1.22234	3026.64
	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]	Low confidence	1	7004.28	1.08076	7569.94
	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	High confidence	1	4456.67	1.29553	5773.77

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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