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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 1 to 50 of 77072 in total

Value Type  : Measured

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