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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Measured

Rank	green	description	network_comparison	Network Comparison Type	Interaction Map	red	Filtered
1	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	36400000	Divided	High confidence	364	0
					Low confidence
	543.5	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	4.4149			2399.5	1
	2394.5	rad50-interacting protein 1. [refseq;acc:nm_021930]	5.31521		High confidence	450.5
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	6325	Subtracted		85	0
					Low confidence
	32028.5	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	8870.5			40899	1
	33356.5	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]	8126		High confidence	41482.5
2	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	8900000	Divided	Low confidence	0.00001	0
	174	cab2. [refseq;acc:nm_033419]	17400000		High confidence
	543.5	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	4.4149		Low confidence	2399.5	1
	2394.5	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	5.31521		High confidence	450.5
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	6325	Subtracted		85	0
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	4196.8		Low confidence	23818.1
	28492	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	7307			21185	1
	33356.5	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	8126		High confidence	41482.5
3	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	8900000	Divided	Low confidence	0.00001	0
	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	10900000		High confidence
	543.5	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	4.4149		Low confidence	2399.5	1
	698.5	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	3.71868		High confidence	2597.5
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	2393.82	Subtracted	Low confidence	5106.93	0
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	4196.8		High confidence	23818.1
	28492	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	7307		Low confidence	21185	1
	33356.5	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	8126		High confidence	41482.5
4	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	8900000	Divided	Low confidence	0.00001	0
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]			High confidence
	543.5	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	4.4149		Low confidence	2399.5	1
	698.5	hbs1-like. [refseq;acc:nm_006620]	3.71868		High confidence	2597.5
	4356	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	2274	Subtracted	Low confidence	2082	0
	21730	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	3026		High confidence	18704
	33356.5	cytohesin 4. [swissprot;acc:q9uia0]	8126			41482.5	1
	43509.4	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	7035.1		Low confidence	36474.3
5	17.5166	jumonji protein. [swissprot;acc:q92833]	1751660	Divided		0.00001	0
	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	8900000		High confidence
	339.5	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	3.39764			1153.5	1
	2113.5	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	2.86965		Low confidence	736.5
	2740.13	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	2254.84	Subtracted		485.286	0
	24446.3	histone h4. [swissprot;acc:p02304]	2673.2		High confidence	21773.1
	33356.5	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	8126			41482.5	1
	43503.3	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	7034		Low confidence	36469.3
6	0.00001	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	1300000	Divided		13	0
	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	8900000		High confidence	0.00001
	339.5	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	3.39764			1153.5	1
	2113.5	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	2.86965		Low confidence	736.5
	8836.85	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	1244.48	Subtracted		7592.37	0
	15605.1		2430.4		High confidence	13174.7
	36927.5	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	7563			44490.5	1
	43368.8	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	7008.5		Low confidence	36360.3
7	0.00001	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	231962	Divided		2.31962	0
	43	sedlin. [swissprot;acc:o14582]	4300000		High confidence	0.00001

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.