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	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 493 to 542 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	Value Type	description	red	green	network_comparison
124	HMG20B	Ranked	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]	208.52	171.595	1.21519
	MAP1LC3B	Measured	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	24255.7	18168.9	1.33501
	PPP1R2P9	Squared	type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210]	192779	126095	1.52884
	TIAL1	Rooted	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	54.6625	67.9477	1.24304
125	HMG20A	Ranked	high-mobility group 20a. [refseq;acc:nm_018200]	208.588	171.778	1.21429
	MAP1LC3A	Measured	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	24255.7	18168.9	1.33501
	RRS1	Squared	ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050]	189976	124480	1.52616
	SNRPD1	Rooted	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	54.8203	67.934	1.23921
126	ATG4B	Measured	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	24250	18164.9	1.33499
	HMG20B	Rooted	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]	60.9342	75.1387	1.23311
	PPP1CA	Squared	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	189976	124480	1.52616
	STAMBPL1	Ranked	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	94	114	1.21277
127	no value	Squared	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	88432.6	58423.3	1.51365
	CHMP2A	Ranked	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	94	114	1.21277
	HMG20A	Rooted	high-mobility group 20a. [refseq;acc:nm_018200]	60.9353	75.094	1.23236
	JUND	Measured	transcription factor jun-d. [swissprot;acc:p17535]	5638.2	7523.39	1.33436
128	no value	Squared	pnas-18. [sptrembl;acc:q9bzu3]	87787.3	58155.8	1.50952
	LUC7L2	Measured	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	4355.61	5810.82	1.3341
	STAMBP	Ranked	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	94	114	1.21277
	TARDBP	Rooted	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	48.0515	39.0445	1.23069
129	LUC7L	Measured	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	4358.13	5811.49	1.33348
	NCBP2L	Rooted	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	54.2343	66.7323	1.23044
	PCF11	Squared	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	178263	118639	1.50257
	VPS24	Ranked	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	94	114	1.21277
130	no value	Rooted	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	55.1026	67.5701	1.22626
	C10orf83	Squared	44050 protein. [refseq;acc:nm_178832]	148058	99628.4	1.4861
	CHMP4A	Ranked	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	94	114	1.21277
	FOXP4	Measured	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	2234.68	2978.53	1.33287
131	no value	Rooted	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	55.1113	67.5537	1.22577
	FOXP1	Measured	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	2234.73	2978.57	1.33285
	PPP1R8	Squared	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	148058	99628.4	1.4861
	SON	Ranked	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	294.053	242.562	1.21228
132	ATG5	Squared	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	36359.2	24466.8	1.48606
	FOXP3	Measured	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	2236.61	2980.35	1.33253
	HAT1	Rooted	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	44.963	55.0576	1.22451
	TOB2	Ranked	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	350	290	1.2069
133	GABARAP	Measured	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	23421.5	17580.4	1.33225
	OSR1	Rooted	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	45.4558	55.5995	1.22316
	TMEM132A	Squared	gbp protein isoform a. [refseq;acc:nm_017870]	1182.25	1726.55	1.46039
	TOB1	Ranked	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	350	290	1.2069
134	no value	Measured	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	21785.2	16426.1	1.32626
	DAB2IP	Ranked	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	350	290	1.2069
	GATAD2A	Squared	p66 alpha. [refseq;acc:nm_017660]	81888.8	56306.5	1.45434
	POLE4	Rooted	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	44.849	54.7964	1.2218
135	ATG3	Measured	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	21785.2	16426.1	1.32626
	CPEB4	Ranked	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	350	290	1.2069
	GATAD2B	Squared	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	81888.8	56306.5	1.45434
	NCBP2	Rooted	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	54.935	66.6101	1.21253
136	no value	Squared	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	81888.8	56306.5	1.45434
	ADIPOR2	Rooted	adiponectin receptor 2. [refseq;acc:nm_024551]	41.8357	50.6469	1.21061

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.