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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3730 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	Filtered	red	network_comparison	green
1	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	364	36400000	0.00001
	rad50-interacting protein 1. [refseq;acc:nm_021930]	1	450.5	5.31521	2394.5
2	cab2. [refseq;acc:nm_033419]	0	0.00001	17400000	174
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	450.5	5.31521	2394.5
3	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		2597.5	3.71868	698.5
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	0.00001	10900000	109
4	hbs1-like. [refseq;acc:nm_006620]	1	2597.5	3.71868	698.5
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	0.00001	8900000	89
5	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	1153.5	3.39764	339.5
6	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	0.00001	8900000	89
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	1153.5	3.39764	339.5
7	sedlin. [swissprot;acc:o14582]	0	0.00001	4300000	43
	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]	1	1153.5	3.39764	339.5
8	db83 protein. [swissprot;acc:p57088]
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0	0.00001	4300000	43
9	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]		85	75.4118	6410
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	1	398.5	3.21581	1281.5
10	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	0	85	75.4118	6410
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	1	398.5	3.21581	1281.5
11	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
	serpin b12. [swissprot;acc:q96p63]	0	199.549	35.8425	5.56738
12	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	1	398.5	3.21581	1281.5
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	0	199.249	34.8539	5.71669
13	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]		1363	29	47
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	1	398.5	3.21581	1281.5
14	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	0	130.512	20.0687	6.50325
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	1	398.5	3.21581	1281.5
15	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]	0	10	15.6	156
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	1	2671	3.06659	871
16	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	0	1	15	15
	protein x 0004. [refseq;acc:nm_016301]	1	2671	3.06659	871
17	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		460	2.96739	1365
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	0	859	14.8103	58
18	60s ribosomal protein l37a. [swissprot;acc:p12751]		305.45	11.6763	26.1599
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	1	677.5	2.75351	1865.5
19	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	0	305.45	11.6763	26.1599
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	1	677.5	2.75351	1865.5
20	ero1-like. [refseq;acc:nm_014584]	0	82	8200000	0.00001
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	1	677.5	2.75351	1865.5
21	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]
	syntaxin 10 (syn10). [swissprot;acc:o60499]	0	118.878	6.73106	17.6611
22	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	1	677.5	2.75351	1865.5
	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	0	60	6000000	0.00001
23	gbp protein isoform a. [refseq;acc:nm_017870]	1	699.76	2.7072	1894.39
	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	0	0.00001	5900000	59
24	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	1	950.561	2.21818	2108.52
	ptd016 protein. [refseq;acc:nm_016125]	0	30	5.26667	158
25	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	1	1833.01	2.0534	892.67
	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	0	148	5.22297	773

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.