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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Measured

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

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.