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

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Showing element 251 to 300 of 77072 in total

Filtered  : 0
Value Type  : Squared

green	description	network_comparison	red	Interaction Map	Network Comparison Type	Rank
0.355148	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	3.06177	3.41692	Low confidence	Subtracted	791
		9.62112			Divided	39
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	3.06177			Subtracted	779
		9.62112			Divided	27
	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	3.06177			Subtracted	789
		9.62112			Divided	37
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	3.06177			Subtracted	780
		9.62112			Divided	28
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	3.06177			Subtracted	778
		9.62112			Divided	26
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	3.06177			Subtracted	785
		9.62112			Divided	33
	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	3.06177			Subtracted	782
		9.62112			Divided	30
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	3.06177			Subtracted	787
		9.62112			Divided	35
	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	3.06177			Subtracted	786
		9.62112			Divided	34
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	3.06177			Subtracted	792
		9.62112			Divided	40
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	3.06177			Subtracted	788
		9.62112			Divided	36
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	3.06177			Subtracted	783
		9.62112			Divided	31
	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]	3.06177			Subtracted	793
		9.62112			Divided	41
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	3.06177			Subtracted	784
		9.62112			Divided	32
0.365145	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	0.875765	1.24091	High confidence	Subtracted	448
		3.3984			Divided	63
0.378698	probable mitochondrial import receptor subunit tom7 homolog (translocase of outer membrane 7 kda subunit homolog) (protein ad- 014). [swissprot;acc:q9p0u1]	0.058935	0.437633	Low confidence	Subtracted	831
		1.15563			Divided	320
0.426714	suppressor of actin 1. [refseq;acc:nm_014016]	0.141747	0.284967	High confidence	Subtracted	469
		1.49742			Divided	179
0.437633	methyltransferase like 2. [refseq;acc:nm_018396]	0.210177	0.227456		Subtracted	468
		1.92403			Divided	119
	sedlin. [swissprot;acc:o14582]	0.437633	0		Subtracted	457
		43763.3	0.00001		Divided	11
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0.437633	0		Subtracted	458
		43763.3	0.00001		Divided	12
0.52284	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	439.186	439.709		Subtracted	190
		841.001			Divided	18
	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	4.31716	4.84		Subtracted	418
				Low confidence		772
		9.25713		High confidence	Divided	38
				Low confidence		42
0.591716	transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084]	0.378698	0.213018	High confidence	Subtracted	459
				Low confidence		818
		2.77777		High confidence	Divided	78
				Low confidence		79

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.