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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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 4258 to 4307 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	Network Comparison Type	red	green	network_comparison
533	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	Rooted	Divided	50.8036	46.8198	1.08509
	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]	Measured	Subtracted	11785.4	10995.3	790.1
	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]	Rooted		55.1759	60.2621	5.0862
	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9]	Ranked	Divided	250.942	235.004	1.06782
	nhp2-like protein 1 (high mobility group-like nuclear protein 2 homolog 1) ([u4/u6.u5] tri-snrnp 15.5 kda protein) (otk27). [swissprot;acc:p55769]	Measured		4651.88	5296.78	1.13863
	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]	Squared	Subtracted	31100.1	36086.4	4986.3
	sodium/iodide cotransporter (na(+)/i(-) cotransporter) (sodium-iodide symporter) (na+/i-symporter). [swissprot;acc:q92911]		Divided	28937.1	34588.8	1.19531
534	40s ribosomal protein s16. [swissprot;acc:p17008]	Rooted		50.8036	46.8198	1.08509
	dehydrodolichyl diphosphate synthase. [refseq;acc:nm_024887]	Squared		27034.1	32301.8	1.19485
	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915]	Ranked		250.942	235.004	1.06782
	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	Squared	Subtracted	31100.2	36086.5	4986.3
	nuclear fragile x mental retardation protein interacting protein 1; nuclear fragile x mental retardation intercating protein 1; nuclear fragile x mental retardation protein-interacting protein 1. [refseq;acc:nm_012345]	Measured	Divided	4651.88	5296.78	1.13863
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Ranked	Subtracted	58	44	14
	proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903]	Measured		5233.86	6022.6	788.74
	pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [refseq;acc:nm_138574]	Rooted		55.1759	60.2621	5.0862
535	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]		Divided	50.8041	46.8218	1.08505
	dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [swissprot;acc:p52434]	Ranked		236.662	252.708	1.0678
	espin. [refseq;acc:nm_031475]	Squared	Subtracted	31100.1	36086.4	4986.3
	maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368]		Divided	37147.5	44372.1	1.19448
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Ranked	Subtracted	112	126	14
	probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196]	Rooted		55.1759	60.2621	5.0862
	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Measured	Divided	10603.5	12069.5	1.13826
	vinculin (metavinculin). [swissprot;acc:p18206]		Subtracted	5958.23	6743.37	785.14
536	calsyntenin-1 precursor. [swissprot;acc:o94985]		Divided	10603.5	12069.5	1.13826
	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635]	Squared	Subtracted	31100.1	36086.4	4986.3
	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	Measured		6227.87	7012.9	785.03
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Rooted	Divided	66.0815	71.6562	1.08436
	integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287]	Squared		28657.6	34208.6	1.1937
	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Ranked		242.531	227.136	1.06778
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]		Subtracted	112	126	14
	rw1 protein (fragment). [swissprot;acc:q92545]	Rooted		55.1759	60.2621	5.0862
537	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	Measured		6228.39	7013.19	784.8
	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Rooted	Divided	66.0817	71.6545	1.08433
	integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7]	Squared		28657.6	34208.6	1.1937
	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832]		Subtracted	31100.1	36086.4	4986.3
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Ranked		10	24	14
	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]		Divided	229.803	215.301	1.06736
	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	Measured		10603.5	12069.5	1.13826
	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	Rooted	Subtracted	56.3551	61.4322	5.0771
538	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	Measured		6228.39	7013.19	784.8
	dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [swissprot;acc:p52436]	Ranked	Divided	237.627	253.604	1.06724
	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Rooted		66.0817	71.6543	1.08433
	integral membrane protein 2a (e25 protein). [swissprot;acc:o43736]	Squared		28657.6	34208.6	1.1937
	lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]		Subtracted	31100.1	36086.4	4986.3
	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Ranked		58	44	14
	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	Rooted		64.4857	69.5606	5.0749
	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Measured	Divided	10603.5	12069.4	1.13825
539	d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917]	Squared	Subtracted	31100.1	36086.4	4986.3
	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	Measured		6228.39	7013.19	784.8
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Rooted	Divided	66.0818	71.6537	1.08432

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.