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	description	Network Comparison Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Measured

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

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.