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

Results: HTML CSV LaTeX

Showing element 482 to 531 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
121	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Rooted	50.339	62.9975	1.25147
	serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873]	Squared	199594	130021	1.53509
	transcription factor jun-b. [swissprot;acc:p17275]	Measured	5579.18	7488.4	1.3422
122	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	Squared	201896	131906	1.53061
	high-mobility group 20a. [refseq;acc:nm_018200]	Measured	5140.14	6893.53	1.34112
	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	Ranked	269.248	327.642	1.21688
	transcription factor jun-d. [swissprot;acc:p17535]	Rooted	63.636	79.6225	1.25122
123	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Measured	24260.3	18172.1	1.33503
	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	Rooted	54.6527	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]	Ranked	269.23	327.601	1.21681
	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	Squared	192904	126167	1.52896
124	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]	Ranked	208.52	171.595	1.21519
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Measured	24255.7	18168.9	1.33501
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	Rooted	54.6625	67.9477	1.24304
	type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210]	Squared	192779	126095	1.52884
125	high-mobility group 20a. [refseq;acc:nm_018200]	Ranked	208.588	171.778	1.21429
	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Measured	24255.7	18168.9	1.33501
	ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050]	Squared	189976	124480	1.52616
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	Rooted	54.8203	67.934	1.23921
126	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Ranked	94	114	1.21277
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured	24250	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]	Rooted	60.9342	75.1387	1.23311
	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	Squared	189976	124480	1.52616
127	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]		88432.6	58423.3	1.51365
	high-mobility group 20a. [refseq;acc:nm_018200]	Rooted	60.9353	75.094	1.23236
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Ranked	94	114	1.21277
	transcription factor jun-d. [swissprot;acc:p17535]	Measured	5638.2	7523.39	1.33436
128	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Ranked	94	114	1.21277
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Measured	4355.61	5810.82	1.3341
	pnas-18. [sptrembl;acc:q9bzu3]	Squared	87787.3	58155.8	1.50952
	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	Rooted	48.0515	39.0445	1.23069
129	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]		54.2343	66.7323	1.23044
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Measured	4358.13	5811.49	1.33348
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Ranked	94	114	1.21277
	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	Squared	178263	118639	1.50257
130	44050 protein. [refseq;acc:nm_178832]		148058	99628.4	1.4861
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Measured	2234.68	2978.53	1.33287
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Rooted	55.1026	67.5701	1.22626
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	Ranked	94	114	1.21277
131	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Measured	2234.73	2978.57	1.33285
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Rooted	55.1113	67.5537	1.22577
	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]	Squared	148058	99628.4	1.4861
	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]	Ranked	294.053	242.562	1.21228
132	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	Squared	36359.2	24466.8	1.48606
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Measured	2236.61	2980.35	1.33253
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Rooted	44.963	55.0576	1.22451
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Ranked	350	290	1.2069
133	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Measured	23421.5	17580.4	1.33225
	gbp protein isoform a. [refseq;acc:nm_017870]	Squared	1182.25	1726.55	1.46039
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Rooted	45.4558	55.5995	1.22316

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
- 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.