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	network_comparison	green	description	Network Comparison Type	Filtered	Interaction Map	red

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Measured

Rank	network_comparison	green	description	Network Comparison Type	Filtered	Interaction Map	red
1	4.4149	543.5	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Divided	1	Low confidence	2399.5
	5.31521	2394.5	rad50-interacting protein 1. [refseq;acc:nm_021930]			High confidence	450.5
	6325	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Subtracted	0		85
						Low confidence
	8126	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]		1	High confidence	41482.5
	8870.5	32028.5	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]			Low confidence	40899
	36400000	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Divided	0	High confidence	364
						Low confidence
2	4.4149	543.5	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		1		2399.5
	5.31521	2394.5	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]			High confidence	450.5
	4196.8	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted	0	Low confidence	23818.1
	6325	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]			High confidence	85
	7307	28492	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		1	Low confidence	21185
	8126	33356.5	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]			High confidence	41482.5
	8900000	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Divided	0	Low confidence	0.00001
	17400000	174	cab2. [refseq;acc:nm_033419]			High confidence
3	3.71868	698.5	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		1		2597.5
	4.4149	543.5	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]			Low confidence	2399.5
	2393.82	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Subtracted	0		5106.93
	4196.8	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]			High confidence	23818.1
	7307	28492	mitochondrial solute carrier protein. [refseq;acc:nm_145305]		1	Low confidence	21185
	8126	33356.5	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]			High confidence	41482.5
	8900000	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Divided	0	Low confidence	0.00001
	10900000	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]			High confidence
4	3.71868	698.5	hbs1-like. [refseq;acc:nm_006620]		1		2597.5
	4.4149	543.5	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]			Low confidence	2399.5
	2274	4356	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	Subtracted	0		2082
	3026	21730	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]			High confidence	18704
	7035.1	43509.4	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]		1	Low confidence	36474.3
	8126	33356.5	cytohesin 4. [swissprot;acc:q9uia0]			High confidence	41482.5
	8900000	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Divided	0	Low confidence	0.00001
			homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]			High confidence
5	2.86965	2113.5	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]		1	Low confidence	736.5
	3.39764	339.5	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]			High confidence	1153.5
	2254.84	2740.13	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted	0	Low confidence	485.286
	2673.2	24446.3	histone h4. [swissprot;acc:p02304]			High confidence	21773.1
	7034	43503.3	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]		1	Low confidence	36469.3
	8126	33356.5	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]			High confidence	41482.5
	1751660	17.5166	jumonji protein. [swissprot;acc:q92833]	Divided	0	Low confidence	0.00001
	8900000	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]			High confidence
6	2.86965	2113.5	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]		1	Low confidence	736.5
	3.39764	339.5	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]			High confidence	1153.5
	1244.48	8836.85	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	Subtracted	0	Low confidence	7592.37
	2430.4	15605.1				High confidence	13174.7
	7008.5	43368.8	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		1	Low confidence	36360.3
	7563	36927.5	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]			High confidence	44490.5
	1300000	0.00001	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Divided	0	Low confidence	13
	8900000	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]			High confidence	0.00001
7	2.86965	2113.5	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]		1	Low confidence	736.5
	3.39764	339.5	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]			High confidence	1153.5

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.