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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Value Type	Interaction Map	green	red	network_comparison
7	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]	Measured	Low confidence	2113.5	736.5	2.86965
		Squared		1057.25	128.386	8.23493
		Rooted		45.9728	27.1385	1.69401
	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Measured	High confidence	339.5	1153.5	3.39764
		Squared		27.2805	314.926	11.544
		Rooted		18.4255	33.9632	1.84327
8	db83 protein. [swissprot;acc:p57088]	Measured		339.5	1153.5	3.39764
		Squared		27.2805	314.926	11.544
		Rooted		18.4255	33.9632	1.84327
	hbs1-like. [refseq;acc:nm_006620]	Ranked		322	215	1.49767
	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]		Low confidence	240	318	1.325
	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]	Measured		5058.5	3278	1.54317
		Squared		6056.43	2543.26	2.38136
	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Rooted		47.6922	31.8641	1.49674
9	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Ranked		44	58	1.31818
	gbp protein isoform a. [refseq;acc:nm_017870]	Rooted		47.7107	31.8923	1.49599
	n33 protein. [swissprot;acc:q13454]	Measured		5058.5	3278	1.54317
		Squared		6056.43	2543.26	2.38136
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Measured	High confidence	1281.5	398.5	3.21581
		Squared		388.696	37.5863	10.3414
		Rooted		35.798	19.9625	1.79326
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Ranked		309	212	1.45755
10	implantation-associated protein. [refseq;acc:nm_032121]	Measured	Low confidence	5058.5	3278	1.54317
		Squared		6056.43	2543.26	2.38136
	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433]	Rooted		47.7352	31.9296	1.49501
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Ranked		44	58	1.31818
	protein x 0004. [refseq;acc:nm_016301]		High confidence	309	212	1.45755
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Measured		1281.5	398.5	3.21581
		Squared		388.696	37.5863	10.3414
		Rooted		35.798	19.9625	1.79326
11	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Squared	Low confidence	192141	106226	1.80879
	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Ranked		28.4944	37.318	1.30966
	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Measured	High confidence	1281.5	398.5	3.21581
		Squared		388.696	37.5863	10.3414
		Rooted		35.798	19.9625	1.79326
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked		232	337	1.45259
	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Measured	Low confidence	2950.5	1917.64	1.53861
	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Rooted		47.928	32.2231	1.48738
12	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Measured	High confidence	1281.5	398.5	3.21581
		Squared		388.696	37.5863	10.3414
		Rooted		35.798	19.9625	1.79326
	gbp protein isoform a. [refseq;acc:nm_017870]	Measured	Low confidence	2954.24	1921.96	1.5371
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Squared		192141	106226	1.80879
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked	High confidence	232	337	1.45259
	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Rooted	Low confidence	47.9763	32.2966	1.48549
	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Ranked		28.5242	37.3475	1.30933
13	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]	Rooted		52.5277	39.2301	1.33896
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Squared		242799	395912	1.63062
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Measured	High confidence	1281.5	398.5	3.21581
		Squared		388.696	37.5863	10.3414

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.