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

Results: HTML CSV LaTeX

Showing element 980 to 1029 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
490	TMOD1	tropomodulin 1 (erythrocyte tropomodulin) (e-tmod). [swissprot;acc:p28289]	Low confidence	209.136	202.478	1.03288
491	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	High confidence	251.83	234.951	1.07184
	SNX9	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]	Low confidence	209.136	202.478	1.03288
492	PAK2	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]	High confidence	220.171	235.979	1.0718
	TMOD2	neuronal tropomodulin (n-tmod) (tropomodulin 2). [swissprot;acc:q9nzr1]	Low confidence	209.136	202.478	1.03288
493	COG5	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]	High confidence	220.172	235.98	1.0718
	TNK2	activated p21cdc42hs kinase. [refseq;acc:nm_005781]	Low confidence	209.136	202.478	1.03288
494	EEF1B2	elongation factor 1-beta (ef-1-beta). [swissprot;acc:p24534]		206.154	199.596	1.03286
	PAK1	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	High confidence	220.172	235.98	1.0718
495	LIMD1	lim domains containing 1. [refseq;acc:nm_014240]	Low confidence	203.117	196.671	1.03278
	PAK3	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	High confidence	220.171	235.979	1.0718
496	no value	probable mitochondrial import receptor subunit tom7 homolog (translocase of outer membrane 7 kda subunit homolog) (protein ad- 014). [swissprot;acc:q9p0u1]	Low confidence	203.117	196.671	1.03278
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	High confidence	250.938	234.134	1.07177
497	EBNA1BP2	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		251.344	234.514
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Low confidence	203.117	196.671	1.03278
498	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	High confidence	220.161	235.95	1.07172
	KIFAP3	kinesin-associated protein 3 (smg gds-associated protein). [swissprot;acc:q92845]	Low confidence	203.117	196.671	1.03278
499	POLI	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]		203.167	196.732	1.03271
	TPI1	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	High confidence	231.496	248.048	1.0715
500	ING2	inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564]		224.662	240.673	1.07127
	RCL1	rna 3'-terminal phosphate cyclase-like protein (hspc338). [swissprot;acc:q9y2p8]	Low confidence	203.85	197.403	1.03266
501	CAPS	calcyphosine. [swissprot;acc:q13938]		204.363	197.899
	CYC1	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	High confidence	238.704	255.68	1.07112
502	ARHGAP26	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]
	SART1	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]	Low confidence	200.271	193.957	1.03255
503	RGN	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	High confidence	238.704	255.68	1.07112
	USP22	ubiquitin carboxyl-terminal hydrolase 22 (ec 3.1.2.15) (ubiquitin thiolesterase 22) (ubiquitin-specific processing protease 22) (deubiquitinating enzyme 22) (fragment). [swissprot;acc:q9upt9]	Low confidence	207.407	200.869	1.03255
504	OPHN1	oligophrenin 1. [swissprot;acc:o60890]	High confidence	238.704	255.68	1.07112
	RNF113A	zinc finger protein 183. [swissprot;acc:o15541]	Low confidence	205.192	198.726	1.03254
505	NOC3L	ad24 protein. [refseq;acc:nm_022451]	High confidence	251.334	234.672	1.071
	PCNA	proliferating cell nuclear antigen (pcna) (cyclin). [swissprot;acc:p12004]	Low confidence	207.84	201.297	1.0325
506	FOXO4	putative fork head domain transcription factor afx1 (forkhead box protein o4). [swissprot;acc:p98177]		205.157	198.715	1.03242
	ING1	inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537]	High confidence	224.535	240.476	1.071
507	no value	hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096]	Low confidence	205.157	198.715	1.03242
	WDR12	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	High confidence	251.299	234.729	1.07059
508	APP	amyloid beta a4 protein precursor (app) (abpp) (alzheimer's disease amyloid protein) (cerebral vascular amyloid peptide) (cvap) (protease nexin-ii) (pn-ii) (appi) (prea4) [contains: soluble app-alpha (s-app- alpha); soluble app-beta (s-app-beta); c99; beta-amyloid protein 42 (beta-app42); beta-amyloid protein 40 (beta-app40); c83; p3(42); p3(40); gamma-ctf(59) (gamma-secretase c-terminal fragment 59) (amyloid intracellular domain 59) (aid(59)); gamma-ctf(57) (gamma- secretase c-terminal fragment 57) (amyloid intracellular domain 57) (aid(57)); gamma-ctf(50) (gamma-secretase c-terminal fragment 50) (amyloid intracellular domain 50) (aid(50)); c31]. [swissprot;acc:p05067]	Low confidence	205.157	198.715	1.03242
	CPA3	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088]	High confidence	177.698	190.24	1.07058
509	CPA6	carboxypeptidase b precursor. [refseq;acc:nm_020361]			190.239	1.07057
	TTYH2	tweety homolog 2. [refseq;acc:nm_032646]	Low confidence	205.157	198.715	1.03242
510	CPB2	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872]	High confidence	177.699	190.24	1.07057
	HBZ	hemoglobin zeta chain (hbaz). [swissprot;acc:p02008]	Low confidence	205.157	198.715	1.03242
511	no value	alpha 2 globin. [refseq;acc:nm_000517]
	NOL1	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]	High confidence	250.053	233.725	1.06986
512	APLP1	amyloid-like protein 1 precursor (aplp) (aplp-1) [contains: c30]. [swissprot;acc:p51693]	Low confidence	205.157	198.715	1.03242
	BOP1	block of proliferation 1. [swissprot;acc:q14137]	High confidence	250.794	234.433	1.06979
513	no value	myoglobin. [swissprot;acc:p02144]	Low confidence	205.157	198.715	1.03242
	DVL1	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	High confidence	218.596	204.344	1.06975
514	DVL2	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]		218.613	204.382	1.06963
	HBQ1	hemoglobin theta-1 chain. [swissprot;acc:p09105]	Low confidence	205.157	198.715	1.03242
515	PES1	pescadillo homolog 1. [swissprot;acc:o00541]	High confidence	251.297	234.941	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
- 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.