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

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Showing element 758 to 807 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	green	network_comparison
48	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Ranked	Divided	High confidence	65.4586	83.0461	1.26868
	GOSR2	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]		Subtracted	Low confidence	259.517	235.017	24.5
	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Squared	Divided	High confidence	6300.2	10703.5	1.69891
	MAGEC1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]		Subtracted	Low confidence	82347.8	61881.5	20466.3
	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]			High confidence	210199	136638	73561
	PBK	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	Rooted	Divided		27.7254	44.0299	1.58807
	RAB11FIP3	eferin. [swissprot;acc:o75154]	Measured	Subtracted	Low confidence	7407.56	8696.7	1289.14
			Rooted			73.6221	81.4944	7.8723
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Ranked		High confidence	350	290	60
	TRO	trophinin. [swissprot;acc:q12816]	Squared	Divided	Low confidence	82347.8	61881.5	1.33073
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	Measured	Subtracted	High confidence	24806.9	20369.9	4437
49	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared	Divided	Low confidence	122475	159767	1.30449
	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Ranked		High confidence	133	105	1.26667
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Rooted	Subtracted	Low confidence	48.8531	56.7071	7.854
	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Measured		High confidence	24806.9	20369.9	4437
	CSTF3	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	Squared			201896	131906	69990
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Ranked			350	290	60
	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Rooted	Divided	Low confidence	66.6623	75.3751	1.1307
	KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]			High confidence	27.7254	44.0299	1.58807
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]		Subtracted		137.446	120.823	16.623
	MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Squared		Low confidence	82347.8	61881.5	20466.3
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Measured	Divided		13470.1	11654.4	1.1558
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]			High confidence	779.167	1390.33	1.78438
	SEPT4	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		Subtracted	Low confidence	11141.5	12351.1	1209.6
	STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Squared	Divided	High confidence	28994.2	17134.8	1.69212
	TBX19	t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806]	Ranked		Low confidence	225.438	202.569	1.11289
				Subtracted				22.869
50	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared		High confidence	173408	242989	69581
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]			Low confidence	82347.8	61881.5	20466.3
	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Ranked	Divided	High confidence	133	105	1.26667
	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Squared			28994.2	17134.8	1.69212
	CPD	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Rooted		Low confidence	202.235	178.965	1.13003
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked	Subtracted	High confidence	350	290	60
			Rooted		Low confidence	48.8781	56.7253	7.8472
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	Measured		High confidence	24473.9	20127.8	4346.1
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Squared	Divided	Low confidence	122475	159767	1.30449
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Ranked			234.802	260.98	1.11149
	KHDRBS1	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Rooted		High confidence	27.7254	44.0299	1.58807
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]		Subtracted		137.446	120.823	16.623
	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Measured	Divided	Low confidence	13466.8	11652.4	1.15571
	NDUFA12	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	Ranked	Subtracted		233.134	210.267	22.867
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Measured	Divided	High confidence	779.167	1390.33	1.78438
	VASP	vasodilator-stimulated phosphoprotein (vasp). [swissprot;acc:p50552]		Subtracted	Low confidence	12768	11571.4	1196.6
51	no value	ena/vasodilator stimulated phosphoprotein-like protein (ena/vasp-like protein). [swissprot;acc:q9ui08]
		hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Rooted		High confidence	137.446	120.823	16.623
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Ranked			350	290	60
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Measured			23640.2	19479.8	4160.4
	GBAS	nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323]	Ranked		Low confidence	249.709	226.944	22.765
			Rooted	Divided		55.0884	62.0722	1.12677
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]		Subtracted		62.7951	70.575	7.7799

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.