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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Measured

Rank	description	Network Comparison Type	Filtered	Interaction Map	green	red	network_comparison
1	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Subtracted	0	High confidence	6410	85	6325
				Low confidence
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]		1		32028.5	40899	8870.5
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Divided			543.5	2399.5	4.4149
	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]	Subtracted		High confidence	33356.5	41482.5	8126
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Divided	0		0.00001	364	36400000
				Low confidence
	rad50-interacting protein 1. [refseq;acc:nm_021930]		1	High confidence	2394.5	450.5	5.31521
2	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Subtracted		Low confidence	28492	21185	7307
	cab2. [refseq;acc:nm_033419]	Divided	0	High confidence	174	0.00001	17400000
	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		1	Low confidence	543.5	2399.5	4.4149
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Subtracted		High confidence	33356.5	41482.5	8126
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Divided	0	Low confidence	89	0.00001	8900000
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted		High confidence	6410	85	6325
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]			Low confidence	19621.3	23818.1	4196.8
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	1	High confidence	2394.5	450.5	5.31521
3	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]			Low confidence	543.5	2399.5	4.4149
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Subtracted		High confidence	33356.5	41482.5	8126
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided			698.5	2597.5	3.71868
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		0	Low confidence	89	0.00001	8900000
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Subtracted	1		28492	21185	7307
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		0	High confidence	19621.3	23818.1	4196.8
	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]			Low confidence	7500.75	5106.93	2393.82
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Divided		High confidence	109	0.00001	10900000
4	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	Subtracted		Low confidence	4356	2082	2274
	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]		1		43509.4	36474.3	7035.1
	cytohesin 4. [swissprot;acc:q9uia0]			High confidence	33356.5	41482.5	8126
	hbs1-like. [refseq;acc:nm_006620]	Divided			698.5	2597.5	3.71868
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		0	Low confidence	89	0.00001	8900000
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]			High confidence
	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]		1	Low confidence	543.5	2399.5	4.4149
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Subtracted	0	High confidence	21730	18704	3026
5	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		1		33356.5	41482.5	8126
	histone h4. [swissprot;acc:p02304]		0		24446.3	21773.1	2673.2
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Divided			89	0.00001	8900000
	jumonji protein. [swissprot;acc:q92833]			Low confidence	17.5166		1751660
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]		1	High confidence	339.5	1153.5	3.39764
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted	0	Low confidence	2740.13	485.286	2254.84
	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Divided	1		2113.5	736.5	2.86965
	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Subtracted			43503.3	36469.3	7034
6	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Divided	0	High confidence	89	0.00001	8900000
	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]			Low confidence	0.00001	13	1300000
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		1	High confidence	339.5	1153.5	3.39764
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted		Low confidence	43368.8	36360.3	7008.5
	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]	Divided			2113.5	736.5	2.86965
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Subtracted		High confidence	36927.5	44490.5	7563
	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]		0		15605.1	13174.7	2430.4
				Low confidence	8836.85	7592.37	1244.48
7	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		1	High confidence	28492	21185	7307
	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]		0	Low confidence	5898.71	4660.09	1238.62

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.