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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 373 to 422 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Value Type	red	network_comparison	green
47	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Subtracted	Measured	24896.4	4464.7	20431.7
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]		Rooted	137.446	16.623	120.823
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Divided	Ranked	325.586	1.26938	256.492
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Subtracted		350	60	290
48	no value	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]		Rooted	137.446	16.623	120.823
	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Divided	Measured	779.167	1.78438	1390.33
	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]		Ranked	65.4586	1.26868	83.0461
	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		Squared	6300.2	1.69891	10703.5
	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Subtracted		210199	73561	136638
	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]	Divided	Rooted	27.7254	1.58807	44.0299
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Subtracted	Ranked	350	60	290
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]		Measured	24806.9	4437	20369.9
49	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Divided	Ranked	133	1.26667	105
	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Subtracted	Measured	24806.9	4437	20369.9
	CSTF3	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]		Squared	201896	69990	131906
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]		Ranked	350	60	290
	KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	Divided	Rooted	27.7254	1.58807	44.0299
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Subtracted		137.446	16.623	120.823
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Divided	Measured	779.167	1.78438	1390.33
	STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]		Squared	28994.2	1.69212	17134.8
50	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Subtracted		173408	69581	242989
	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Divided	Ranked	133	1.26667	105
	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]		Squared	28994.2	1.69212	17134.8
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Subtracted	Ranked	350	60	290
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]		Measured	24473.9	4346.1	20127.8
	KHDRBS1	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Divided	Rooted	27.7254	1.58807	44.0299
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Subtracted		137.446	16.623	120.823
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Divided	Measured	779.167	1.78438	1390.33
51	no value	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Subtracted	Rooted	137.446	16.623	120.823
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]		Ranked	350	60	290
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]		Measured	23640.2	4160.4	19479.8
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]		Squared	173408	69581	242989
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Divided	Rooted	27.7254	1.58807	44.0299
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]		Measured	779.167	1.78438	1390.33
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]		Ranked	133	1.26667	105
	STAMBP	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]		Squared	28994.2	1.69212	17134.8
52	AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]		Ranked	133	1.26667	105
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]		Measured	779.167	1.78438	1390.33
	CPSF3	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	Subtracted		23422.4	4042.1	19380.3
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]		Squared	173408	69581	242989
	MAGEA6	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]		Rooted	137.446	16.623	120.823
	NEURL	neuralized-like. [refseq;acc:nm_004210]	Divided		27.9107	1.58239	44.1656
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Subtracted	Ranked	350	60	290
	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Divided	Squared	28994.2	1.69212	17134.8
53	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Subtracted		173408	69581	242989
	CDK2AP1	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	Divided	Measured	779.167	1.78438	1390.33
	CHMP4A	protein hspc134 (protein cda04). [swissprot;acc:q9by43]		Squared	28994.2	1.69212	17134.8
	JUNB	transcription factor jun-b. [swissprot;acc:p17275]		Ranked	201.144	1.26611	158.868
	NDN	necdin. [swissprot;acc:q99608]	Subtracted	Rooted	137.446	16.623	120.823
	NDUFS4	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	Divided		30.8986	1.50369	46.4619

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.