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

Results: HTML CSV LaTeX

Showing element 2964 to 3013 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1482	LSAMP	limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]	High confidence	224.354	220.15	1.0191
1483	LETMD1	cervical cancer 1 protooncogene protein p40; regulator of tp53. [refseq;acc:nm_015416]	Low confidence	204.229	199.931	1.0215
	PDHB	pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]	High confidence	198.927	202.726	1.0191
1484	ALDH1B1	aldehyde dehydrogenase x, mitochondrial precursor (ec 1.2.1.3) (aldh class 2). [swissprot;acc:p30837]	Low confidence	205.089	209.494	1.02148
	TMEM91	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	High confidence	198.927	202.726	1.0191
1485	ARHGAP1	rho-gtpase-activating protein 1 (gtpase-activating protein rhoogap) (rho-related small gtpase protein activator) (cdc42 gtpase-activating protein) (p50-rhogap). [swissprot;acc:q07960]	Low confidence	205.448	201.131	1.02146
	RBPJ	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	High confidence	207.877	203.989	1.01906
1486	no value	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	Low confidence	201.541	197.306	1.02146
	HIVEP3	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]	High confidence	207.877	203.989	1.01906
1487	CCNH	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	Low confidence	201.236	197.009	1.02146
	HIVEP1	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]	High confidence	207.877	203.989	1.01906
1488	FH	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]	Low confidence	201.541	197.306	1.02146
	HIVEP2	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]	High confidence	207.877	203.989	1.01906
1489	ELAVL1	elav-like protein 1 (hu-antigen r) (hur). [swissprot;acc:q15717]	Low confidence	202.955	198.692	1.02146
	MAP3K7	mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318]	High confidence	213.251	209.264	1.01905
1490	BCCIP	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Low confidence	202.583	198.329	1.02145
	PTRH2	protein cgi-147. [swissprot;acc:q9y3e5]	High confidence	221.961	226.186	1.01903
1491	GPI	glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744]		217.704	221.839	1.01899
	SMC6	smc6 protein. [refseq;acc:nm_024624]	Low confidence	200.985	196.766	1.02144
1492	MNAT1	cdk-activating kinase assembly factor mat1 (ring finger protein mat1) (menage a trois) (cdk7/cyclin h assembly factor) (p36) (p35) (cyclin g1 interacting protein). [swissprot;acc:p51948]		201.276	197.051
	OPCML	opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982]	High confidence	224.159	220.017	1.01883
1493	GNL2	autoantigen ngp-1. [swissprot;acc:q13823]	Low confidence	201.398	197.173	1.02143
	PDHA2	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	High confidence	204.146	207.988	1.01882
1494	GORASP1	golgi reassembly stacking protein 1; golgi peripheral membrane protein p65; golgi reassembly and stacking protein, 65 kda; golgi phosphoprotein 5. [refseq;acc:nm_031899]	Low confidence	200.547	196.34	1.02143
	PDHA1	pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	High confidence	204.133	207.967	1.01878
1495	CSNK1A1L	casein kinase i alpha s-like. [refseq;acc:nm_145203]		229.459	225.237	1.01874
	ORC5L	origin recognition complex subunit 5. [swissprot;acc:o43913]	Low confidence	202.419	206.753	1.02141
1496	CSNK1A1	casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]	High confidence	229.459	225.237	1.01874
	VAV1	vav proto-oncogene. [swissprot;acc:p15498]	Low confidence	200.208	196.012	1.02141
1497	LTA4H	leukotriene a-4 hydrolase (ec 3.3.2.6) (lta-4 hydrolase) (leukotriene a(4) hydrolase). [swissprot;acc:p09960]		197.941	193.791
	XPO1	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	High confidence	224.476	220.363	1.01866
1498	no value	neurotrimin precursor (hnt). [swissprot;acc:q9p121]		224.022	219.924	1.01863
	FZR1	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	Low confidence	189.066	185.103	1.02141
1499	no value	importin 4. [refseq;acc:nm_024658]		201.224	197.007
	DCP1A	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]	High confidence	224.509	220.411	1.01859
1500	COPS4	cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129]		213.398	209.52	1.01851
	GPD1	glycerol-3-phosphate dehydrogenase [nad+], cytoplasmic (ec 1.1.1.8) (gpd-c) (gpdh-c). [swissprot;acc:p21695]	Low confidence	200.875	196.667	1.0214
1501	KIFC3	kinesin family member c3. [refseq;acc:nm_005550]	High confidence	214.727	210.838	1.01845
	MAPK7	mitogen-activated protein kinase 7 (ec 2.7.1.37) (extracellular signal-regulated kinase 5) (erk-5) (erk4) (bmk1 kinase). [swissprot;acc:q13164]	Low confidence	200.507	196.307	1.0214
1502	no value	uridine kinase-like 1. [swissprot;acc:q9nwz5]	High confidence	218.084	214.149	1.01838
	HLTF	swi/snf-related matrix-associated actin-dependent regulator of chromatin a3; snf2-like 3; helicase-like transcription factor; dna-binding protein/plasminogen activator inhibitor-1 regulator; sucrose nonfermenting-like 3. [refseq;acc:nm_003071]	Low confidence	202.287	198.05	1.02139
1503	KRR1	hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043]	High confidence	242.181	237.834	1.01828
	VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	Low confidence	200.237	196.045	1.02138
1504	CDC25C	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	High confidence	259.439	254.797	1.01822
	EPN2	epsin 2 isoform b; eps15 binding protein. [refseq;acc:nm_014964]	Low confidence	192.267	188.242	1.02138
1505	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	High confidence	216.158	212.316	1.0181
	QARS	glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897]	Low confidence	202.722	198.48	1.02137
1506	C16orf42	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	High confidence	212.103	208.339	1.01807
	RAB8B	ras-related protein rab-8b. [swissprot;acc:q92930]	Low confidence	200.685	196.487	1.02137
1507	ATP6V1B2	vacuolar atp synthase subunit b, brain isoform (ec 3.6.3.14) (v-atpase b2 subunit) (vacuolar proton pump b isoform 2) (endomembrane proton pump 58 kda subunit) (ho57). [swissprot;acc:p21281]		198.931	194.769

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
- Hugo is the HGNC identifier if it exists
- 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.