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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Value Type	network_comparison	red	green
1	Divided	RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Measured	5.31521	450.5	2394.5
				Squared	28.2513	48.0356	1357.07
				Rooted	2.30547	21.225	48.9336
		UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Ranked	2.4	10	24
	Subtracted	no value	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]	Measured	8126	41482.5	33356.5
		HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Ranked	107	215	322
		RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Rooted	27.7086	21.225	48.9336
		UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Squared	145743	468498	322755
2	Divided	no value	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]	Ranked	1.86667	15	28
		RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Measured	5.31521	450.5	2394.5
				Squared	28.2513	48.0356	1357.07
				Rooted	2.30547	21.225	48.9336
	Subtracted	no value	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]	Squared	143938	407289	263351
		HBS1L	hbs1-like. [refseq;acc:nm_006620]	Ranked	107	215	322
		PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Measured	8126	41482.5	33356.5
		RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Rooted	27.7086	21.225	48.9336
3	Divided	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Measured	3.71868	2597.5	698.5
				Squared	13.8285	1596.92	115.48
				Rooted	1.92839	50.9657	26.4292
		PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Ranked	1.86667	15	28
	Subtracted	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Rooted	24.5365	50.9657	26.4292
		PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Squared	143938	407289	263351
		PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Measured	8126	41482.5	33356.5
		RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked	105	337	232
4	Divided	HBS1L	hbs1-like. [refseq;acc:nm_006620]	Measured	3.71868	2597.5	698.5
				Squared	13.8285	1596.92	115.48
				Rooted	1.92839	50.9657	26.4292
		PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Ranked	1.86667	15	28
	Subtracted	HBS1L	hbs1-like. [refseq;acc:nm_006620]	Rooted	24.5365	50.9657	26.4292
		PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Squared	143938	407289	263351
		PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Measured	8126	41482.5	33356.5
		RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked	105	337	232
5	Divided	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Measured	3.39764	1153.5	339.5
				Squared	11.544	314.926	27.2805
				Rooted	1.84327	33.9632	18.4255
		PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Ranked	1.86667	15	28
	Subtracted	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Rooted	23.245	145.551	168.796
		PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Measured	8126	41482.5	33356.5
		PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Squared	143938	407289	263351
		XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Ranked	97	212	309
6	Divided	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Measured	3.39764	1153.5	339.5
				Squared	11.544	314.926	27.2805
				Rooted	1.84327	33.9632	18.4255
		PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Ranked	1.86667	15	28
	Subtracted	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]		97	212	309
		PANK1	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Rooted	23.245	145.551	168.796
		PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Squared	143938	407289	263351
		UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Measured	7563	44490.5	36927.5
7	Divided	HLX	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Ranked	1.49767	215	322
		SMPD2	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]	Measured	3.39764	1153.5	339.5

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
- Hugo is the HGNC identifier if it exists
- 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.