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

Results: HTML CSV LaTeX

Showing element 2680 to 2729 of 3228 in total

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

Rank	description	green	network_comparison	red
2680	transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112]	144.56	1.00096	144.422
2681	ubiquitin-specific protease otubain 2. [refseq;acc:nm_023112]	203.787		203.592
2682	transforming protein n-ras. [swissprot;acc:p01111]	144.564	1.00095	144.427
2683	nuclease sensitive element binding protein 1 (y box binding protein-1) (y-box transcription factor) (yb-1) (ccaat-binding transcription factor i subunit a) (cbf-a) (enhancer factor i subunit a) (efi-a) (dna-binding protein b) (dbpb). [swissprot;acc:p16991]	208.635		208.438
2684	dna-binding protein a (cold shock domain protein a) (single-strand dna binding protein nf-gmb). [swissprot;acc:p16989]
2685	germ cell specific y-box binding protein; contrin. [refseq;acc:nm_015982]
2686	proteasome subunit beta type 7 precursor (ec 3.4.25.1) (proteasome subunit z) (macropain chain z) (multicatalytic endopeptidase complex chain z). [swissprot;acc:q99436]	219.629	1.00091	219.829
2687	branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [swissprot;acc:o15382]	210.755	1.00087	210.939
2688	peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [swissprot;acc:o75521]	194.392	1.00085	194.557
2689	atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [swissprot;acc:p53396]	213.619	1.00081	213.792
2690	aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087]	188.046	1.00077	188.191
2691	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]	188.048		188.193
2692	aquaporin 5. [swissprot;acc:p55064]			188.192
2693	lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301]	188.049		188.193
2694	aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972]	188.081	1.00075	188.223
2695	signal recognition particle 54 kda protein (srp54). [swissprot;acc:p13624]	215.384		215.545
2696	iron-responsive element binding protein 1 (ire-bp 1) (iron regulatory protein 1) (irp1) (ferritin repressor protein) (aconitate hydratase) (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:p21399]	201.794	1.0007	201.652
2697	arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]	225.232	1.00067	225.081
2698	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	188.31	1.00066	188.435
2699	calsyntenin-1 precursor. [swissprot;acc:o94985]
2700	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]
2701	serine/threonine-protein kinase dcamkl1 (ec 2.7.1.-) (doublecortin- like and cam kinase-like 1). [swissprot;acc:o15075]	216.682		216.539
2702	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	188.311		188.435
2703	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]
2704	gk001 protein. [refseq;acc:nm_020198]
2705	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	188.334	1.00065	188.457
2706	calsyntenin-3 precursor. [swissprot;acc:q9bqt9]	188.336		188.459
2707	red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [swissprot;acc:p24666]	215.232	1.00063	215.096
2708	porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	227.66	1.0006	227.796
2709	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]	220.395	1.00057	220.521
2710	importin 8; ran-binding protein 8. [refseq;acc:nm_006390]
2711	brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]
2712	hsgcn1 (fragment). [sptrembl;acc:q99736]
2713	brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]
2714	similar to trna synthetase class ii. [refseq;acc:nm_152268]	220.348	1.00056	220.224
2715	basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	215.903	1.00053	216.018
2716	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162]
2717	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	216.634	1.00052	216.521
2718	histidine-rich membrane protein ke4. [swissprot;acc:q92504]	216.632		216.52
2719	microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691]
2720	microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8]	216.633
2721	bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814]	221.116	1.00043	221.022
2722	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	219.214		219.308
2723	lamin b2. [swissprot;acc:q03252]	219.413	1.00041	219.323
2724	heat shock protein hsp 90-beta (hsp 84) (hsp 90). [swissprot;acc:p08238]	220.963		221.053
2725	doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602]	216.569	1.00034	216.496
2726	rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873]	220.927	1.00033	221.001
2727	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]
2728	atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010]
2729	ubiquitin-specific protease otubain 1. [refseq;acc:nm_017670]	202.06	1.00031	202.123

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.