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	green	red	network_comparison

Results: HTML CSV LaTeX

Showing element 980 to 1029 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	green	red	network_comparison
490	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	Divided	236.015	220.183	1.0719
491	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	Subtracted	166.351	150.959	15.392
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Divided	234.951	251.83	1.07184
492	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	Subtracted	166.372	150.982	15.39
	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	Divided	235.979	220.171	1.0718
493	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]		235.98	220.172
	zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	Subtracted	252.038	236.751	15.287
494	metaxin 2. [swissprot;acc:o75431]		234.793	219.537	15.256
	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	Divided	235.98	220.172	1.0718
495	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]		235.979	220.171
	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263]	Subtracted	237.393	222.146	15.247
496	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]		250.419	235.18	15.239
	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	Divided	234.134	250.938	1.07177
497	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		234.514	251.344
	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Subtracted	209.798	225.026	15.228
498	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	Divided	235.95	220.161	1.07172
	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	Subtracted	252.492	237.28	15.212
499	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]
	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	Divided	248.048	231.496	1.0715
500	inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564]		240.673	224.662	1.07127
	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	Subtracted	252.492	237.28	15.212
501	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	Divided	255.68	238.704	1.07112
	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	Subtracted	252.492	237.28	15.212
502	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	Divided	255.68	238.704	1.07112
	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	Subtracted	252.492	237.28	15.212
503	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	Divided	255.68	238.704	1.07112
504	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	Subtracted	252.492	237.28	15.212
	oligophrenin 1. [swissprot;acc:o60890]	Divided	255.68	238.704	1.07112
505	ad24 protein. [refseq;acc:nm_022451]		234.672	251.334	1.071
	zinc finger protein t86. [swissprot;acc:o00488]	Subtracted	231.796	246.805	15.009
506	exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3]		230.07	215.237	14.833
	inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537]	Divided	240.476	224.535	1.071
507	exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868]	Subtracted	230.07	215.237	14.833
	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	Divided	234.729	251.299	1.07059
508	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]		190.24	177.698	1.07058
	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	Subtracted	213.422	228.255	14.833
509	carboxypeptidase b precursor. [refseq;acc:nm_020361]	Divided	190.239	177.698	1.07057
	exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5]	Subtracted	230.07	215.237	14.833
510	exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4]
	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	Divided	190.24	177.699	1.07057
511	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]		233.725	250.053	1.06986
	sqv-7-like protein (fragment). [sptrembl;acc:o95454]	Subtracted	229.565	214.754	14.811
512	block of proliferation 1. [swissprot;acc:q14137]	Divided	234.433	250.794	1.06979
	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]	Subtracted	215.301	229.803	14.502
513	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	Divided	204.344	218.596	1.06975
	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	Subtracted	212.994	227.483	14.489
514	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]		208.523	222.893	14.37
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	Divided	204.382	218.613	1.06963
515	pescadillo homolog 1. [swissprot;acc:o00541]		234.941	251.297	1.06962

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.