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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 14920 in total

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

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

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.