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 1958 to 2007 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
979	BLOC1S1	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]	High confidence	202.027	195.386	1.03399
980	BRAF	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]		130.289	134.713	1.03396
	PDCL3	iap-associated factor viaf1; phosducin-like 2. [refseq;acc:nm_024065]	Low confidence	201.185	196.346	1.02465
981	ABHD11	williams beuren syndrome chromosome region 21 isoform 1. [refseq;acc:nm_148912]		201.186	196.347
	EXOC3	exocyst complex component sec6. [swissprot;acc:o60645]	High confidence	207.186	200.398	1.03387
982	CIRH1A	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]		243.312	235.351	1.03383
	USP13	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]	Low confidence	204.318	199.402	1.02465
983	FNBP1	ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6]		201.215	196.378	1.02463
	RSL1D1	pbk1 protein. [sptrembl;acc:o76021]	High confidence	243.312	235.353	1.03382
984	CTSA	lysosomal protective protein precursor (ec 3.4.16.5) (cathepsin a) (carboxypeptidase c) (protective protein for beta-galactosidase). [swissprot;acc:p10619]	Low confidence	201.065	196.232	1.02463
	PAPOLA	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	High confidence	116.71	120.654	1.03379
985	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Low confidence	151.012	154.728	1.02461
	PDCD5	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737]	High confidence	233.402	225.782	1.03375
986	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Low confidence	192.111	187.496	1.02461
	EXOC2	exocyst complex component sec5. [swissprot;acc:q96kp1]	High confidence	116.771	120.707	1.03371
987	HTRA2	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]		218.459	211.338	1.03369
	WDR68	wd-repeat protein an11 homolog. [swissprot;acc:o15491]	Low confidence	200.981	196.157	1.02459
988	AADAT	alpha-aminoadipate aminotransferase; l-kynurenine/alpha-aminoadipate aminotransferase; kynurenine aminotransferase ii. [refseq;acc:nm_016228]		186.556	182.079
	HTRA4	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	High confidence	218.461	211.343	1.03368
989	CDC25C	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	Low confidence	207.083	202.115	1.02458
	HTRA3	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	High confidence	218.462	211.345	1.03367
990	DDX52	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]		243.297	235.373
	TIAL1	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	Low confidence	200.345	195.539	1.02458
991	DPM1	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]	High confidence	203.381	196.76	1.03365
	POLR3C	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	Low confidence	203.123	198.251	1.02457
992	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	High confidence	218.468	211.357	1.03364
	UBE2C	ubiquitin-conjugating enzyme e2 c (ec 6.3.2.19) (ubiquitin-protein ligase c) (ubiquitin carrier protein c) (ubch10). [swissprot;acc:o00762]	Low confidence	204.364	199.464	1.02457
993	GIT2	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161]		206.357	201.409
	PNN	pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687]	High confidence	211.071	204.205	1.03362
994	OGDH	2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218]	Low confidence	201.562	196.729	1.02457
	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	High confidence	116.845	120.772	1.03361
995	MAD2L2	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]		219.656	212.547	1.03345
	USP2	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]	Low confidence	200.373	195.574	1.02454
996	no value	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	High confidence	219.656	212.547	1.03345
	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Low confidence	204.965	200.057	1.02453
997	no value	rd protein. [swissprot;acc:p18615]
	NUP88	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]	High confidence	219.656	212.547	1.03345
998	DYNC1I2	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]		225.557	218.271	1.03338
	WRNIP1	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [refseq;acc:nm_020135]	Low confidence	199.985	195.196	1.02453
999	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]		204.965	200.057
	VCL	vinculin (metavinculin). [swissprot;acc:p18206]	High confidence	215.92	208.95	1.03336
1000	no value	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]		225.167	217.922	1.03325
	HCLS1	hematopoietic lineage cell specific protein (hematopoietic cell- specific lyn substrate 1) (lckbp1). [swissprot;acc:p14317]	Low confidence	199.945	195.159	1.02452
1001	CASKIN1	rna-binding protein s1, serine-rich domain; sr protein. [refseq;acc:nm_006711]		206.276	201.339
	SPRY3	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]	High confidence	225.167	217.922	1.03325
1002	BRD7	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]	Low confidence	205.137	200.227	1.02452
	SPRY1	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]	High confidence	225.167	217.922	1.03325
1003	NAGS	n-acetylglutamate synthase. [refseq;acc:nm_153006]	Low confidence	191.663	187.077	1.02451
	SPRY2	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]	High confidence	225.167	217.922	1.03325
1004	no value	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]		238.725	231.059	1.03318

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.