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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Value Type  : Measured

Rank	Filtered	description	Interaction Map	Network Comparison Type	network_comparison	red	green
1	0	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	High confidence	Subtracted	6325	85	6410
			Low confidence
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	High confidence	Divided	36400000	364	0.00001
			Low confidence
	1	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]		Subtracted	8870.5	40899	32028.5
		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]		Divided	4.4149	2399.5	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]	High confidence	Subtracted	8126	41482.5	33356.5
		rad50-interacting protein 1. [refseq;acc:nm_021930]		Divided	5.31521	450.5	2394.5
2	0	cab2. [refseq;acc:nm_033419]			17400000	0.00001	174
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence		8900000		89
		lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	High confidence	Subtracted	6325	85	6410
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Low confidence		4196.8	23818.1	19621.3
	1	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]			7307	21185	28492
		cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		Divided	4.4149	2399.5	543.5
		cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	High confidence	Subtracted	8126	41482.5	33356.5
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		Divided	5.31521	450.5	2394.5
3	0	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Low confidence		8900000	0.00001	89
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	High confidence	Subtracted	4196.8	23818.1	19621.3
		nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Low confidence		2393.82	5106.93	7500.75
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	High confidence	Divided	10900000	0.00001	109
	1	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	Low confidence		4.4149	2399.5	543.5
		cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	High confidence	Subtracted	8126	41482.5	33356.5
		homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		Divided	3.71868	2597.5	698.5
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Low confidence	Subtracted	7307	21185	28492
4	0	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]			2274	2082	4356
		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		Divided	8900000	0.00001	89
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	High confidence
		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]		Subtracted	3026	18704	21730
	1	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Low confidence		7035.1	36474.3	43509.4
		cytohesin 4. [swissprot;acc:q9uia0]	High confidence		8126	41482.5	33356.5
		hbs1-like. [refseq;acc:nm_006620]		Divided	3.71868	2597.5	698.5
		lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473]	Low confidence		4.4149	2399.5	543.5
5	0	histone h4. [swissprot;acc:p02304]	High confidence	Subtracted	2673.2	21773.1	24446.3
		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Divided	8900000	0.00001	89
		jumonji protein. [swissprot;acc:q92833]	Low confidence		1751660		17.5166
		lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]		Subtracted	2254.84	485.286	2740.13
	1	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	High confidence		8126	41482.5	33356.5
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]		Divided	3.39764	1153.5	339.5
		oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]	Low confidence		2.86965	736.5	2113.5
		vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]		Subtracted	7034	36469.3	43503.3
6	0	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	High confidence	Divided	8900000	0.00001	89
		homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Low confidence		1300000	13	0.00001
		similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	High confidence	Subtracted	2430.4	13174.7	15605.1
			Low confidence		1244.48	7592.37	8836.85
	1	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	High confidence	Divided	3.39764	1153.5	339.5
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Low confidence	Subtracted	7008.5	36360.3	43368.8
		oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5]		Divided	2.86965	736.5	2113.5
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	High confidence	Subtracted	7563	44490.5	36927.5
7	0	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Low confidence		1238.62	4660.09	5898.71
		sedlin. [swissprot;acc:o14582]	High confidence	Divided	4300000	0.00001	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.