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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1 to 50 of 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
1	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Subtracted	41482.5	33356.5	8126
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	450.5	2394.5	5.31521
2	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Subtracted	41482.5	33356.5	8126
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	450.5	2394.5	5.31521
3	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Subtracted	41482.5	33356.5	8126
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided	2597.5	698.5	3.71868
4	cytohesin 4. [swissprot;acc:q9uia0]	Subtracted	41482.5	33356.5	8126
	hbs1-like. [refseq;acc:nm_006620]	Divided	2597.5	698.5	3.71868
5	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Subtracted	41482.5	33356.5	8126
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	1153.5	339.5	3.39764
6	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Subtracted	44490.5	36927.5	7563
7	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		21185	28492	7307
	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]	Divided	1153.5	339.5	3.39764
8	db83 protein. [swissprot;acc:p57088]
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Subtracted	21185	28492	7307
9	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Divided	398.5	1281.5	3.21581
10	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Subtracted	21185	28492	7307
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Divided	398.5	1281.5	3.21581
11	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Subtracted	21185	28492	7307
12	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Divided	398.5	1281.5	3.21581
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted	34190.9	40795.8	6604.9
13	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Divided	398.5	1281.5	3.21581
	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Subtracted	21591.5	27904.5	6313
14	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Divided	398.5	1281.5	3.21581
15	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Subtracted	21591.5	27904.5	6313
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided	2671	871	3.06659
16	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	24260.3	18172.1	6088.2
	protein x 0004. [refseq;acc:nm_016301]	Divided	2671	871	3.06659
17	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		460	1365	2.96739
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Subtracted	24255.7	18168.9	6086.8
18	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Divided	677.5	1865.5	2.75351
19	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Subtracted	24250	18164.9	6085.1
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Divided	677.5	1865.5	2.75351
20	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Subtracted	23421.5	17580.4	5841.1
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Divided	677.5	1865.5	2.75351
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]
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Subtracted	23693.7	18263	5430.7
22	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Divided	677.5	1865.5	2.75351
23	gbp protein isoform a. [refseq;acc:nm_017870]		699.76	1894.39	2.7072
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Subtracted	23693.7	18263	5430.7
24	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	Divided	950.561	2108.52	2.21818
25	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		1833.01	892.67	2.0534
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Subtracted	23693.7	18263	5430.7

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.