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

Results: HTML CSV LaTeX

Showing element 1958 to 2007 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
979	vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670]	no value	Low confidence	196.475	191.748	1.02465
980	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	BRAF	High confidence	130.289	134.713	1.03396
	iap-associated factor viaf1; phosducin-like 2. [refseq;acc:nm_024065]	PDCL3	Low confidence	201.185	196.346	1.02465
981	exocyst complex component sec6. [swissprot;acc:o60645]	EXOC3	High confidence	207.186	200.398	1.03387
	williams beuren syndrome chromosome region 21 isoform 1. [refseq;acc:nm_148912]	ABHD11	Low confidence	201.186	196.347	1.02465
982	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]	CIRH1A	High confidence	243.312	235.351	1.03383
	ubiquitin carboxyl-terminal hydrolase 13 (ec 3.1.2.15) (ubiquitin thiolesterase 13) (ubiquitin-specific processing protease 13) (deubiquitinating enzyme 13) (isopeptidase t-3) (isot-3). [swissprot;acc:q92995]	USP13	Low confidence	204.318	199.402	1.02465
983	ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6]	FNBP1		201.215	196.378	1.02463
	pbk1 protein. [sptrembl;acc:o76021]	RSL1D1	High confidence	243.312	235.353	1.03382
984	lysosomal protective protein precursor (ec 3.4.16.5) (cathepsin a) (carboxypeptidase c) (protective protein for beta-galactosidase). [swissprot;acc:p10619]	CTSA	Low confidence	201.065	196.232	1.02463
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	PAPOLA	High confidence	116.71	120.654	1.03379
985	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	ATG4A	Low confidence	151.012	154.728	1.02461
	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737]	PDCD5	High confidence	233.402	225.782	1.03375
986	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	ANLN	Low confidence	192.111	187.496	1.02461
	exocyst complex component sec5. [swissprot;acc:q96kp1]	EXOC2	High confidence	116.771	120.707	1.03371
987	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	HTRA2		218.459	211.338	1.03369
	wd-repeat protein an11 homolog. [swissprot;acc:o15491]	WDR68	Low confidence	200.981	196.157	1.02459
988	alpha-aminoadipate aminotransferase; l-kynurenine/alpha-aminoadipate aminotransferase; kynurenine aminotransferase ii. [refseq;acc:nm_016228]	AADAT		186.556	182.079
	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	HTRA4	High confidence	218.461	211.343	1.03368
989	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	CDC25C	Low confidence	207.083	202.115	1.02458
	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	HTRA3	High confidence	218.462	211.345	1.03367
990	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	DDX52		243.297	235.373
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	TIAL1	Low confidence	200.345	195.539	1.02458
991	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762]	DPM1	High confidence	203.381	196.76	1.03365
	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	POLR3C	Low confidence	203.123	198.251	1.02457
992	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	HTRA1	High confidence	218.468	211.357	1.03364
	ubiquitin-conjugating enzyme e2 c (ec 6.3.2.19) (ubiquitin-protein ligase c) (ubiquitin carrier protein c) (ubch10). [swissprot;acc:o00762]	UBE2C	Low confidence	204.364	199.464	1.02457
993	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161]	GIT2		206.357	201.409
	pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687]	PNN	High confidence	211.071	204.205	1.03362
994	2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218]	OGDH	Low confidence	201.562	196.729	1.02457
	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	PAPOLG	High confidence	116.845	120.772	1.03361
995	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	MAD2L2		219.656	212.547	1.03345
	ubiquitin carboxyl-terminal hydrolase 2 (ec 3.1.2.15) (ubiquitin thiolesterase 2) (ubiquitin-specific processing protease 2) (deubiquitinating enzyme 2) (41 kda ubiquitin-specific protease). [swissprot;acc:o75604]	USP2	Low confidence	200.373	195.574	1.02454
996	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	no value	High confidence	219.656	212.547	1.03345
	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	PAH	Low confidence	204.965	200.057	1.02453
997	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]	NUP88	High confidence	219.656	212.547	1.03345
	rd protein. [swissprot;acc:p18615]	no value	Low confidence	204.965	200.057	1.02453
998	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]	DYNC1I2	High confidence	225.557	218.271	1.03338
	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [refseq;acc:nm_020135]	WRNIP1	Low confidence	199.985	195.196	1.02453
999	j domain containing protein 1. [swissprot;acc:q9ukb3]	DNAJC12		204.965	200.057
	vinculin (metavinculin). [swissprot;acc:p18206]	VCL	High confidence	215.92	208.95	1.03336
1000	hematopoietic lineage cell specific protein (hematopoietic cell- specific lyn substrate 1) (lckbp1). [swissprot;acc:p14317]	HCLS1	Low confidence	199.945	195.159	1.02452
	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	no value	High confidence	225.167	217.922	1.03325
1001	rna-binding protein s1, serine-rich domain; sr protein. [refseq;acc:nm_006711]	CASKIN1	Low confidence	206.276	201.339	1.02452
	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]	SPRY3	High confidence	225.167	217.922	1.03325
1002	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]	BRD7	Low confidence	205.137	200.227	1.02452
	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]	SPRY1	High confidence	225.167	217.922	1.03325
1003	n-acetylglutamate synthase. [refseq;acc:nm_153006]	NAGS	Low confidence	191.663	187.077	1.02451
	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]	SPRY2	High confidence	225.167	217.922	1.03325
1004	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	TIA1	Low confidence	200.403	195.612	1.02449

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.