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

Results: HTML CSV LaTeX

Showing element 2930 to 2979 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1465	MTO1	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	High confidence	217.351	213.18	1.01957
1466	no value	vesicle trafficking protein sec22b. [refseq;acc:nm_004892]	Low confidence	202.483	198.21	1.02156
	RTN2	reticulon protein 2 (neuroendocrine-specific protein-like 1) (nsp-like protein 1) (nspli). [swissprot;acc:o75298]	High confidence	207.022	211.073	1.01957
1467	ADD3	gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8]	Low confidence	205.917	201.572	1.02156
	MPP2	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	High confidence	228.513	232.983	1.01956
1468	DRAP1	dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442]		212.001	207.937	1.01954
	VCL	vinculin (metavinculin). [swissprot;acc:p18206]	Low confidence	202.572	198.298	1.02155
1469	RTN3	reticulon protein 3 (neuroendocrine-specific protein-like 2) (nsp-like protein ii) (nsplii). [swissprot;acc:o95197]	High confidence	207.013	211.05	1.0195
	RXRA	retinoic acid receptor rxr-alpha. [swissprot;acc:p19793]	Low confidence	203.215	198.93	1.02154
1470	QARS	glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897]	High confidence	221.412	217.199	1.0194
	UTY	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]	Low confidence	200.929	196.693	1.02154
1471	DMAP1	dna methyltransferase 1-associated protein 1 (dnmt1-associated protein 1) (dnmap1). [swissprot;acc:q9npf5]		203.488	199.197
	SRM	spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623]	High confidence	221.412	217.199	1.0194
1472	GARS	glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]
	UTX	ubiquitously transcribed x chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the x chromosome). [swissprot;acc:o15550]	Low confidence	200.93	196.694	1.02154
1473	no value	ptd016 protein. [refseq;acc:nm_016125]		203.488	199.197
	EARS2	glutamyl trna synthetase. [sptrembl;acc:o14563]	High confidence	221.412	217.199	1.0194
1474	ELAVL4	elav-like protein 4 (paraneoplastic encephalomyelitis antigen hud) (hu-antigen d). [swissprot;acc:p26378]	Low confidence	202.941	198.663	1.02153
	RANBP5	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410]	High confidence	218.582	214.427	1.01938
1475	KYNU	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]		181.882	178.438	1.0193
	VPS52	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	Low confidence	198.197	194.02	1.02153
1476	EYA1	eyes absent homolog 1. [swissprot;acc:q99502]		203.162	198.88
	RANBP6	ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	High confidence	218.591	214.457	1.01928
1477	no value	transformer-2 protein homolog (tra-2 alpha). [swissprot;acc:q13595]		215.328	211.267	1.01922
	HN1L	hn1 like. [refseq;acc:nm_144570]	Low confidence	190.569	186.552	1.02153
1478	SFRS10	arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815]	High confidence	215.122	211.066	1.01922
	TBX1	t-box transcription factor tbx1 (t-box protein 1) (testis-specific t-box protein). [swissprot;acc:o43435]	Low confidence	198.794	194.608	1.02151
1479	MPP6	maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [swissprot;acc:q9nzw5]	High confidence	228.469	232.855	1.0192
	UBE2S	ubiquitin-conjugating enzyme e2-24 kda (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2-epf5). [swissprot;acc:q16763]	Low confidence	198.794	194.608	1.02151
1480	CPSF6	cleavage and polyadenylation specific factor 6, 68 kd subunit; pre-mrna cleavage factor im (68kd); cleavage and polyadenylation specific factor 6, 68kd subunit; pre-mrna cleavage factor i, 68kd subunit. [refseq;acc:nm_007007]	High confidence	218.664	214.55	1.01918
	RXRG	retinoic acid receptor rxr-gamma. [swissprot;acc:p48443]	Low confidence	203.213	198.935	1.0215
1481	CDC23	cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661]	High confidence	208.432	204.516	1.01915
	SFRS18	sr rich protein. [refseq;acc:nm_032870]	Low confidence	204.229	199.931	1.0215
1482	no value	retinoic acid receptor rxr-beta. [swissprot;acc:p28702]		203.213	198.936
	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

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.