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

Results: HTML CSV LaTeX

Showing element 325 to 374 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	Value Type	Network Comparison Type	description	red	green	network_comparison
41	GNAI3	Measured	Divided	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]	1836.81	907.978	2.02297
		Rooted			40.2797	24.3705	1.65281
	MAP1LC3B	Squared		microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	144912	81155	1.78562
	TRO	Measured	Subtracted	trophinin. [swissprot;acc:q12816]	23693.7	18263	5430.7
42	no value			gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	21785.2	16426.1	5359.1
		Rooted		jun dimerization protein. [refseq;acc:nm_130469]	60.8365	77.7233	16.8868
	CPSF3	Squared		cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	211446	137422	74024
	FOS	Ranked	Divided	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	204.641	160.957	1.2714
	GNB5	Measured		guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]	1857.32	958.237	1.93827
		Rooted			40.225	24.7051	1.62821
	MAP1LC3A	Squared		microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	144911	81154.7	1.78561
	PBK	Ranked	Subtracted	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]	332.874	267.246	65.628
43	no value		Divided	jun dimerization protein. [refseq;acc:nm_130469]	204.641	160.957	1.2714
	ATG3	Measured	Subtracted	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	21785.2	16426.1	5359.1
	ATG4B	Squared	Divided	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	144876	81136.5	1.78558
	FOSL2	Rooted	Subtracted	fos-related antigen 2. [swissprot;acc:p15408]	60.8675	77.7168	16.8493
	GNB1		Divided	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	40.6302	25.4452	1.59677
	GNB3	Measured		guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	1881.02	1027.36	1.83093
	KHDRBS3	Ranked	Subtracted	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	332.874	267.246	65.628
	MYO5B	Squared		myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	110342	184298	73956
44	DNASE2B	Measured		deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	28136.5	33457.6	5321.1
	FOSB	Rooted		protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	60.8692	77.7165	16.8473
	FOSL2	Ranked	Divided	fos-related antigen 2. [swissprot;acc:p15408]	204.641	161.046	1.2707
	GABARAP	Squared		gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	139741	78454.6	1.78117
	GNB1	Measured		guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	1931.34	1057.39	1.82652
	GNB4	Rooted		guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	40.5691	25.4263	1.59556
	KHDRBS1	Ranked	Subtracted	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	332.874	267.246	65.628
	MYO5C	Squared		myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	110342	184298	73956
45	no value		Divided	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	129597	73157.5	1.77148
			Subtracted	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	110342	184298	73956
	FOSB	Ranked	Divided	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	204.641	161.051	1.27066
	FOSL1	Rooted	Subtracted	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	60.875	77.7152	16.8402
	GNB3		Divided	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	40.081	25.1546	1.59339
	GNB4	Measured		guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	1926.69	1056.02	1.82448
	KHDRBS2	Ranked	Subtracted	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	332.874	267.246	65.628
	PPP1R7	Measured		protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	27642.5	22440.4	5202.1
46	ATG3	Squared	Divided	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	129597	73157.5	1.77148
	CPSF4	Measured	Subtracted	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]	24896.4	20431.7	4464.7
	DTX2	Rooted	Divided	deltex 2. [refseq;acc:nm_020892]	27.634	43.9629	1.5909
	FOSL1	Ranked		fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	204.642	161.068	1.27053
	MAGED4	Rooted	Subtracted	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	137.446	120.823	16.623
	NEURL	Ranked		neuralized-like. [refseq;acc:nm_004210]	332.326	266.948	65.378
	NEUROD2	Measured	Divided	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	779.167	1390.33	1.78438
	PAPOLA	Squared	Subtracted	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	210445	136779	73666
47	no value		Divided	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	98517.9	56927.2	1.73059
	CHD3	Measured		chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	779.167	1390.33	1.78438
	DTX1	Rooted		deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	27.7078	44.017	1.58861
	EXOC2	Squared	Subtracted	exocyst complex component sec5. [swissprot;acc:q96kp1]	210335	136716	73619
	KIAA1012	Measured		trs85 homolog. [swissprot;acc:q9y2l5]	24896.4	20431.7	4464.7
	MAGEE2	Rooted		hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	137.446	120.823	16.623

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.