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

Results: HTML CSV LaTeX

Showing element 4991 to 5040 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	red	green	network_comparison
1248	Squared	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]	20118.6	22816.7	1.13411
	Rooted	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	60.3706	57.7639	1.04513
1249	Measured	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	4413.55	4784.6	1.08407
	Ranked	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]	219.354	224.7	1.02437
	Squared	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	20118.6	22816.8	1.13411
	Rooted	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]	60.3706	57.7637	1.04513
1250	Measured	huntingtin interacting protein 1 (hip-i). [swissprot;acc:o00291]	10733.4	9902.6	1.0839
	Ranked	pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059]	219.354	224.7	1.02437
	Squared	polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025]	20118.6	22816.8	1.13411
	Rooted	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	60.3706	57.7637	1.04513
1251	Measured	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	8618.32	9340.98	1.08385
	Ranked	integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418]	219.354	224.7	1.02437
	Squared	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	20118.6	22816.7	1.13411
	Rooted	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]	62.7005	65.5304	1.04513
1252	Measured	zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315]	8618.32	9340.98	1.08385
	Ranked	star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4]	219.354	224.7	1.02437
	Squared	putative eukaryotic translation initiation factor 3 subunit (eif-3) (fragment). [swissprot;acc:o75153]	23843.4	27039	1.13402
	Rooted	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	60.3706	57.7638	1.04513
1253	Measured	transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275]	8618.32	9340.98	1.08385
	Ranked	ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404]	219.354	224.7	1.02437
	Squared	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	14996.8	17006.2	1.13399
	Rooted	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	60.3736	57.7709	1.04505
1254	Measured	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]	10725.6	9896.32	1.0838
	Ranked	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283]	219.354	224.7	1.02437
	Squared	dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475]	26773.9	30358.8	1.1339
	Rooted	serine/threonine protein kinase 23 (ec 2.7.1.37) (muscle-specific serine kinase 1) (mssk-1). [swissprot;acc:q9upe1]	62.4299	65.2404	1.04502
1255	Measured	serine/threonine protein phosphatase 4 (ec 3.1.3.16) (pp4) (protein phosphatase x) (pp-x). [swissprot;acc:p33172]	5438.66	5893.87	1.0837
	Ranked	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]	219.354	224.7	1.02437
	Squared	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399]	22337.6	25320.9	1.13356
	Rooted	gtp binding protein 2. [refseq;acc:nm_019096]	62.4299	65.2404	1.04502
1256	Measured	huntingtin interacting protein 1 related (hip1-related) (hip 12). [swissprot;acc:o75146]	10719	9891.08	1.0837
	Ranked	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	219.354	224.699	1.02437
	Squared	transportin-sr; importin 12. [refseq;acc:nm_012470]	22037.5	24968.1	1.13298
	Rooted	cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [swissprot;acc:q99941]	62.4299	65.2404	1.04502
1257	Measured	immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [swissprot;acc:p78318]	5438.66	5893.87	1.0837
	Ranked	espin. [refseq;acc:nm_031475]	219.354	224.7	1.02437
	Squared	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	22008	24929.4	1.13274
	Rooted	dna segment on chromosome 6(unique) 2654 expressed sequence; dna segment on chromosome x (unique) 2654 expressed sequence. [refseq;acc:nm_012135]	62.4299	65.2404	1.04502
1258	Measured	glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2]	6251.32	6774.12	1.08363
	Ranked	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635]	219.354	224.7	1.02437
	Squared	apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481]	23019.8	26073.1	1.13264
	Rooted	sfrs protein kinase 2 isoform b. [refseq;acc:nm_182691]	62.4299	65.2404	1.04502
1259	Measured	epidermal growth factor receptor pathway substrate 8-like protein 1 isoform c; epidermal growth factor receptor pathway substrate 8-related protein 1; eps8-related protein 1. [refseq;acc:nm_139204]	5685.38	6157.7	1.08308
	Ranked	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832]	219.354	224.7	1.02437
	Squared	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	13834.4	15664	1.13225
	Rooted	cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [swissprot;acc:p18850]	62.4299	65.2404	1.04502
1260	Measured	rad54-like protein; rad54 homolog. [refseq;acc:nm_003579]	5754.84	6232.83	1.08306
	Ranked	lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]	219.354	224.7	1.02437
	Squared	rab3a interacting protein (rabin3)-like 1. [refseq;acc:nm_013401]	31586.9	35762.8	1.1322
	Rooted	sfrs protein kinase 1; sr protein kinase 1. [refseq;acc:nm_003137]	62.4299	65.2404	1.04502

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.