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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 358 to 407 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Value Type	red	green	network_comparison
45	GNB4	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	Divided	Measured	1926.69	1056.02	1.82448
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Subtracted	Ranked	332.874	267.246	65.628
	PPP1R7	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]		Measured	27642.5	22440.4	5202.1
46	ATG3	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Divided	Squared	129597	73157.5	1.77148
	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]	Subtracted	Measured	24896.4	20431.7	4464.7
	DTX2	deltex 2. [refseq;acc:nm_020892]	Divided	Rooted	27.634	43.9629	1.5909
	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]		Ranked	204.642	161.068	1.27053
	MAGED4	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Subtracted	Rooted	137.446	120.823	16.623
	NEURL	neuralized-like. [refseq;acc:nm_004210]		Ranked	332.326	266.948	65.378
	NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Divided	Measured	779.167	1390.33	1.78438
	PAPOLA	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Subtracted	Squared	210445	136779	73666
47	no value	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Divided		98517.9	56927.2	1.73059
	CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]		Measured	779.167	1390.33	1.78438
	DTX1	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]		Rooted	27.7078	44.017	1.58861
	EXOC2	exocyst complex component sec5. [swissprot;acc:q96kp1]	Subtracted	Squared	210335	136716	73619
	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]		Measured	24896.4	20431.7	4464.7
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]		Rooted	137.446	120.823	16.623
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Divided	Ranked	325.586	256.492	1.26938
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Subtracted		350	290	60
48	no value	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]		Rooted	137.446	120.823	16.623
	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Divided	Measured	779.167	1390.33	1.78438
	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]		Ranked	65.4586	83.0461	1.26868
	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		Squared	6300.2	10703.5	1.69891
	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	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]	Divided	Rooted	27.7254	44.0299	1.58807
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Subtracted	Ranked	350	290	60
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]		Measured	24806.9	20369.9	4437
49	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Divided	Ranked	133	105	1.26667
	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Subtracted	Measured	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
	KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	Divided	Rooted	27.7254	44.0299	1.58807
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Subtracted		137.446	120.823	16.623
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Divided	Measured	779.167	1390.33	1.78438
	STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]		Squared	28994.2	17134.8	1.69212
50	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Subtracted		173408	242989	69581
	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Divided	Ranked	133	105	1.26667
	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]		Squared	28994.2	17134.8	1.69212
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Subtracted	Ranked	350	290	60
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]		Measured	24473.9	20127.8	4346.1
	KHDRBS1	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Divided	Rooted	27.7254	44.0299	1.58807
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Subtracted		137.446	120.823	16.623
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Divided	Measured	779.167	1390.33	1.78438
51	no value	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Subtracted	Rooted	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
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]		Squared	173408	242989	69581
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Divided	Rooted	27.7254	44.0299	1.58807
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]		Measured	779.167	1390.33	1.78438
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]		Ranked	133	105	1.26667

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.