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

Results: HTML CSV LaTeX

Showing element 512 to 561 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Value Type	network_comparison	red	green
64	Subtracted	NFYA	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Ranked	56.223	260.532	204.309
65	Divided	no value	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Squared	1.68808	219048	129762
		GNAQ	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	Ranked	1.25807	267.136	336.077
		NEURL	neuralized-like. [refseq;acc:nm_004210]	Measured	1.6229	1657.68	2690.25
		PYGB	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Rooted	1.35128	63.8686	47.2654
	Subtracted	no value	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	Ranked	56.221	187.457	243.678
		CSTF3	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	Measured	3812.9	22515.5	18702.6
		MAGED2	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	Rooted	16.623	137.446	120.823
		MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Squared	63757	144912	81155
66	Divided	GNA11	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	Ranked	1.25807	267.136	336.077
		MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Squared	1.68808	219048	129762
		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]	Measured	1.61795	1991.03	3221.38
		PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Rooted	1.35128	63.8686	47.2654
	Subtracted	ARAF	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398]	Measured	3749.5	17757.5	14008
		MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Squared	63756.3	144911	81154.7
		PPP2R2D	uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]	Ranked	56.22	187.458	243.678
		TRO	trophinin. [swissprot;acc:q12816]	Rooted	16.623	137.446	120.823
67	Divided	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Measured	1.59177	6475.5	10307.5
		GNAT2	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	Ranked	1.25805	267.14	336.075
		MAGEA8	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Squared	1.68808	219048	129762
		MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Rooted	1.35128	63.8686	47.2654
	Subtracted	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Squared	63739.5	144876	81136.5
		GBE1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Rooted	16.6032	63.8686	47.2654
		PPP2R2B	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Ranked	56.219	187.458	243.677
		RAF1	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	Measured	3749.2	17756.5	14007.3
68	Divided	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]		1.59177	6475.5	10307.5
		GNAZ	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]	Ranked	1.25805	267.139	336.075
		MAGEC1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Squared	1.68808	219048	129762
		PYGM	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	Rooted	1.35128	63.8686	47.2654
	Subtracted	CCNG2	cyclin g2. [swissprot;acc:q16589]	Measured	3742.9	17738.6	13995.7
		GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Squared	61286.4	139741	78454.6
		PPP2R2C	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4]	Ranked	56.211	187.462	243.673
		PYGB	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Rooted	16.6032	63.8686	47.2654
69	Divided	GNAT1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Ranked	1.25805	267.14	336.075
		MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Squared	1.68808	219048	129762
		NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Rooted	1.33581	27.9136	37.2872
		SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]	Measured	1.59177	6475.5	10307.5
	Subtracted	CCNG1	cyclin g1 (cyclin g). [swissprot;acc:p51959]		3742.9	17738.5	13995.6
		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	55.819	284.753	228.934
		PCF11	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	Squared	59624	178263	118639
		PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Rooted	16.6032	63.8686	47.2654
70	Divided	no value	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	Squared	1.68808	219048	129762
		AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Measured	1.59177	6475.5	10307.5
		CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	Rooted	1.33581	27.9136	37.2872
		GNAI2	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	Ranked	1.25804	267.142	336.074
	Subtracted	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	Squared	56439.5	129597	73157.5
		MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Rooted	16.6032	63.8686	47.2654
		PPP2R1B	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	Ranked	54.054	188.688	242.742
		PPP2R5E	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	Measured	3742.8	17738.5	13995.7
71	Divided	no value	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]		1.54716	4556.78	2945.26

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.