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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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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 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Divided	0	4294	15915	3.70633
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Subtracted	1	215	322	107
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]		0	8906	21883	12977
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	1	10	24	2.4
2	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Subtracted	0	4294	15915	11621
	hbs1-like. [refseq;acc:nm_006620]		1	215	322	107
	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]	Divided		15	28	1.86667
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]		0	5865	14977	2.55362
3	cab2. [refseq;acc:nm_033419]	Subtracted		21866	10950	10916
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Divided	1	15	28	1.86667
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]		0	4475.84	11083.9	2.47638
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Subtracted	1	337	232	105
4	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Divided		15	28	1.86667
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]		0	8906	21883	2.45711
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	Subtracted		11525	21888	10363
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		1	337	232	105
5	cytohesin 4. [swissprot;acc:q9uia0]	Divided		15	28	1.86667
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Subtracted	0	11525	21888	10363
	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	Divided		5510.5	11965.7	2.17144
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Subtracted	1	212	309	97
6	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Divided		15	28	1.86667
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Subtracted	0	5865	14977	9112
	protein x 0004. [refseq;acc:nm_016301]		1	212	309	97
	ubiquitin protein ligase. [refseq;acc:nm_130466]	Divided	0	7523	15339.2	2.03897
7	cab2. [refseq;acc:nm_033419]			21866	10950	1.99689
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		1	215	322	1.49767
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Subtracted	0	22286	13216	9070
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]		1	288.754	212.554	76.2
8	hbs1-like. [refseq;acc:nm_006620]	Divided		215	322	1.49767
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Subtracted	0	22286	13216	9070
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]		1	288	362	74
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	Divided	0	11525	21888	1.89918
9	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Subtracted		22286	13216	9070
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		1	288	362	74
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Divided	0	11525	21888	1.89918
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]		1	212	309	1.45755
10	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]		0	7509.39	14178.1	1.88805
	protein x 0004. [refseq;acc:nm_016301]		1	212	309	1.45755
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Subtracted	0	20989	12479	8510
	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	288	362	74
11	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]		0	12170.7	20670.6	8499.9
	db83 protein. [swissprot;acc:p57088]		1	288	362	74
	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	Divided	0	11627	6248	1.86092
	rad50-interacting protein 1. [refseq;acc:nm_021930]		1	337	232	1.45259
12	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]		0	9429.18	5208.84	1.81023
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	Subtracted	1	266.856	336.233	69.377
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided		337	232	1.45259
	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]	Subtracted	0	19403	11267	8136
13	dystrophin. [swissprot;acc:p11532]			10232.5	18054.8	7822.3
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]		1	266.856	336.233	69.377

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.