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

Results: HTML CSV LaTeX

Showing element 958 to 1007 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
479	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	NOLA1	Divided	228.051	212.321	1.07409
480	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	NETO2		237.109	254.667	1.07405
	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	PAK1	Subtracted	220.172	235.98	15.808
481	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	NETO1	Divided	237.109	254.667	1.07405
	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	PAK3	Subtracted	220.171	235.979	15.808
482	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	HNRNPU	Divided	237.109	254.667	1.07405
	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	ARHGEF6	Subtracted	220.161	235.95	15.789
483	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	RUNX2	Divided	237.109	254.667	1.07405
	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	BRF1	Subtracted	228.051	212.321	15.73
484	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	HNRPUL1	Divided	237.109	254.667	1.07405
	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	NOLA1	Subtracted	228.051	212.321	15.73
485	60s ribosomal protein l18. [swissprot;acc:q07020]	RPL18	Divided	237.109	254.667	1.07405
	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	PPM1B	Subtracted	231.276	215.627	15.649
486	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	EIF6		248.866	233.287	15.579
	mct-1 protein. [refseq;acc:nm_014060]	MCTS1	Divided	226.313	243.03	1.07387
487	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	MDH2	Subtracted	238.529	254.099	15.57
	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	MRPL22	Divided	226.313	243.03	1.07387
488	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	no value	Subtracted	82.5916	98.0548	15.4632
	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]	SART1	Divided	225.026	209.798	1.07258
489	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	ATG3	Subtracted	82.5916	98.0548	15.4632
	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	PPM1B	Divided	231.276	215.627	1.07257
490	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	SSB	Subtracted	242.531	227.136	15.395
	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	ARHGEF7	Divided	220.183	236.015	1.0719
491	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	PITRM1	Subtracted	150.959	166.351	15.392
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	GTPBP4	Divided	251.83	234.951	1.07184
492	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	ALG1	Subtracted	150.982	166.372	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]	PAK2	Divided	220.171	235.979	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]	COG5		220.172	235.98
	zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	ZNRD1	Subtracted	236.751	252.038	15.287
494	metaxin 2. [swissprot;acc:o75431]	MTX2		219.537	234.793	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]	PAK1	Divided	220.172	235.98	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]	PAK3		220.171	235.979
	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263]	YME1L1	Subtracted	222.146	237.393	15.247
496	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	no value		235.18	250.419	15.239
	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	PPAN-P2RY11	Divided	250.938	234.134	1.07177
497	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]	EBNA1BP2		251.344	234.514
	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]	SART1	Subtracted	225.026	209.798	15.228
498	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	ARHGEF6	Divided	220.161	235.95	1.07172
	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	TLX3	Subtracted	237.28	252.492	15.212
499	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]	BARX1
	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	TPI1	Divided	231.496	248.048	1.0715
500	inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564]	ING2		224.662	240.673	1.07127
	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	OPN4	Subtracted	237.28	252.492	15.212
501	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	CYC1	Divided	238.704	255.68	1.07112
	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	TLX2	Subtracted	237.28	252.492	15.212
502	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	ARHGAP26	Divided	238.704	255.68	1.07112
	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	TLX1	Subtracted	237.28	252.492	15.212
503	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]	HECTD1
	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	RGN	Divided	238.704	255.68	1.07112
504	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	BARX2	Subtracted	237.28	252.492	15.212

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.