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 1682 to 1731 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
841	RIOK1	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]	Subtracted	236.741	245.547	8.806
842	CCDC22	jm1 protein. [refseq;acc:nm_014008]	Divided	219.762	210.806	1.04248
	MARK1	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]	Subtracted	236.741	245.547	8.806
843	GART	trifunctional purine biosynthetic protein adenosine-3 [includes: phosphoribosylamine--glycine ligase (ec 6.3.4.13) (gars) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase); phosphoribosylformylglycinamidine cyclo-ligase (ec 6.3.3.1) (airs) (phosphoribosyl-aminoimidazole synthetase) (air synthase); phosphoribosylglycinamide formyltransferase (ec 2.1.2.2) (gart) (gar transformylase) (5'-phosphoribosylglycinamide transformylase)]. [swissprot;acc:p22102]	Divided	218.521	227.796	1.04244
	MARK2	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]	Subtracted	236.741	245.547	8.806
844	CLEC3A	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	Divided	178.033	170.82	1.04223
	SPO11	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	Subtracted	236.741	245.547	8.806
845	HAO2	hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [swissprot;acc:q9nyq3]		232.512	241.288	8.776
	LSM1	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	Divided	228.599	219.399	1.04193
846	no value	methyltransferase like 2. [refseq;acc:nm_018396]		147.211	153.371	1.04184
	CDC73	parafibromin. [refseq;acc:nm_024529]	Subtracted	239.704	230.991	8.713
847	DYNLT1	cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763]	Divided	147.211	153.371	1.04184
	MYCL1	l-myc-1 proto-oncogene protein. [swissprot;acc:p12524]	Subtracted	227.604	219.001	8.603
848	FZR1	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	Divided	147.211	153.371	1.04184
	WIPF1	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516]	Subtracted	206.214	197.614	8.6
849	C16orf80	transcription factor iib. [refseq;acc:nm_013242]		206.068	197.471	8.597
	PCSK5	proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824]	Divided	147.211	153.371	1.04184
850	CPSF4	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]		107.842	112.329	1.04161
	SFRS8	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	Subtracted	206.068	197.471	8.597
851	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Divided	107.842	112.329	1.04161
	MYCN	n-myc proto-oncogene protein. [swissprot;acc:p04198]	Subtracted	227.601	219.008	8.593
852	GABPA	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546]		227.596	219.017	8.579
	HPRT1	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	Divided	193.114	185.412	1.04154
853	no value	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545]	Subtracted	227.596	219.017	8.579
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	Divided	108.289	112.772	1.0414
854	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
	NDUFS8	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217]	Subtracted	227.596	219.017	8.579
855	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Divided	178.514	171.42	1.04138
	ELOVL1	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]	Subtracted	227.596	219.018	8.578
856	MYC	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]		227.585	219.037	8.548
	XPR1	xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736]	Divided	215.028	206.623	1.04068
857	MDN1	midasin (midas-containing protein). [swissprot;acc:q9nu22]	Subtracted	237.218	228.698	8.52
	PNO1	putatative 28 kda protein. [refseq;acc:nm_020143]	Divided	227.241	236.467	1.0406
858	SRP68	signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9]	Subtracted	221.306	212.806	8.5
	STX12	syntaxin 12. [refseq;acc:nm_177424]	Divided	217.446	208.997	1.04043
859	no value	60s ribosomal protein l39. [swissprot;acc:p02404]		234.025	224.958	1.04031
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted	50.7983	42.3003	8.498
860		60s ribosomal protein l18a. [swissprot;acc:q02543]	Divided	234.025	224.958	1.04031
	NOL6	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]	Subtracted	242.024	233.544	8.48
861	RPS19	40s ribosomal protein s19. [swissprot;acc:p39019]	Divided	234.025	224.958	1.04031
	STX12	syntaxin 12. [refseq;acc:nm_177424]	Subtracted	217.446	208.997	8.449
862	PKM2	pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618]		231.357	239.778	8.421
	RPL31	60s ribosomal protein l31. [swissprot;acc:p12947]	Divided	234.025	224.958	1.04031
863	CSNK2A1P	casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138]		240.194	230.957	1.03999
	XPR1	xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736]	Subtracted	215.028	206.623	8.405
864	CSNK2A2	casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784]	Divided	240.194	230.957	1.03999
	EXOC4	exocyst complex component sec8. [swissprot;acc:q96a65]	Subtracted	217.762	209.449	8.313
865	BTF3	transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290]	Divided	211.961	203.814	1.03997
	ZNF174	zinc finger protein 174 (aw-1). [swissprot;acc:q15697]	Subtracted	269.963	278.239	8.276
866	no value	zinc finger imprinted 2. [swissprot;acc:q9nzv7]		269.96	278.232	8.272

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.