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

Results: HTML CSV LaTeX

Showing element 980 to 1029 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	red	Value Type	Interaction Map	green	network_comparison
123	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	MAGEA9	11285.3	Measured	Low confidence	10318.5	1.0937
	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	TIA1	54.6527	Rooted	High confidence	67.9743	1.24375
	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1	269.23	Ranked		327.601	1.21681
	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	PPP1R2	192904	Squared		126167	1.52896
	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	DVL3	202.96	Ranked	Low confidence	190.094	1.06768
124	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	BCL6	81993.8	Squared		71914	1.14016
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	208.52	Ranked	High confidence	171.595	1.21519
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	MAGEA8	11285.3	Measured	Low confidence	10318.5	1.0937
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	MAP1LC3B	24255.7		High confidence	18168.9	1.33501
	mouse mammary turmor virus receptor homolog 1. [refseq;acc:nm_152832]	FAM89B	63.5737	Rooted	Low confidence	68.4785	1.07715
	natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281]	SLC11A2	224.763	Ranked		210.566	1.06742
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	TIAL1	54.6625	Rooted	High confidence	67.9477	1.24304
	type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210]	PPP1R2P9	192779	Squared		126095	1.52884
125	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	B9D1	213.243	Ranked	Low confidence	227.616	1.0674
	c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	CTBP2	81761.4	Squared		71730.2	1.13985
	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	208.588	Ranked	High confidence	171.778	1.21429
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	MAGEC1	11285.3	Measured	Low confidence	10318.5	1.0937
	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	MAP1LC3A	24255.7		High confidence	18168.9	1.33501
	ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050]	RRS1	189976	Squared		124480	1.52616
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	SNRPD1	54.8203	Rooted		67.934	1.23921
	sperm associated antigen 7. [refseq;acc:nm_004890]	SPAG7	132.137		Low confidence	122.736	1.0766
126	adiponectin receptor 2. [refseq;acc:nm_024551]	ADIPOR2	66.1599			71.1967	1.07613
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	STAMBPL1	94	Ranked	High confidence	114	1.21277
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	ATG4B	24250	Measured		18164.9	1.33499
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	60.9342	Rooted		75.1387	1.23311
	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	LASS2	191.688	Ranked	Low confidence	179.639	1.06707
	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	MAGEA4	11285.3	Measured		10318.5	1.0937
	rho guanine nucleotide exchange factor 5 (guanine nucleotide regulatory protein tim) (oncogene tim) (p60 tim) (transforming immortalized mammary oncogene). [swissprot;acc:q12774]	ARHGEF5	58231.9	Squared		51117.1	1.13919
	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	PPP1CA	189976		High confidence	124480	1.52616
127	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	no value	88432.6			58423.3	1.51365
	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	60.9353	Rooted		75.094	1.23236
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	no value	11285.3	Measured	Low confidence	10318.5	1.0937
	monocarboxylate transporter 8 (mct 8) (x-linked pest-containing transporter) (mct 7). [swissprot;acc:p36021]	SLC16A2	63904	Squared		72791.6	1.13908
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	CHMP2A	94	Ranked	High confidence	114	1.21277
	transcription factor jun-d. [swissprot;acc:p17535]	JUND	5638.2	Measured		7523.39	1.33436
	vacuolar assembly protein vps41 homolog (s53). [swissprot;acc:p49754]	VPS41	70.0842	Rooted	Low confidence	75.3627	1.07532
	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	VPS33B	203.678	Ranked		190.88	1.06705
128	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP	94		High confidence	114	1.21277
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	LUC7L2	4355.61	Measured		5810.82	1.3341
	malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298]	LENG4	64.4748	Rooted	Low confidence	60.0381	1.0739
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	MAGEA10	11285.3	Measured		10318.5	1.0937
	pnas-18. [sptrembl;acc:q9bzu3]	no value	87787.3	Squared	High confidence	58155.8	1.50952
	solute carrier family 16 (monocarboxylic acid transporters), member 10; t-type amino acid transporter 1. [refseq;acc:nm_018593]	SLC16A10	63903.1		Low confidence	72790.2	1.13907
	striatin. [swissprot;acc:o43815]	STRN	214.085	Ranked		200.796	1.06618
	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	TARDBP	48.0515	Rooted	High confidence	39.0445	1.23069
129	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L	54.2343			66.7323	1.23044
	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]	COL4A3BP	220.969	Ranked	Low confidence	235.572	1.06609
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	LUC7L	4358.13	Measured	High confidence	5811.49	1.33348
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	MAGEB4	11285.3		Low confidence	10318.5	1.0937
	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]	NDUFS4	62.9048	Rooted		67.5424	1.07372

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.