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

Results: HTML CSV LaTeX

Showing element 2751 to 2800 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1376	EYA3	eyes absent homolog 3. [swissprot;acc:q99504]	Divided	218.537	213.91	1.02163
	RAD23A	uv excision repair protein rad23 homolog a (hhr23a). [swissprot;acc:p54725]	Subtracted	220.987	225.468	4.481
1377	PSMD4	26s proteasome non-atpase regulatory subunit 4 (26s proteasome regulatory subunit s5a) (rpn10) (multiubiquitin chain binding protein) (antisecretory factor-1) (af) (asf). [swissprot;acc:p55036]
	SALL2	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	Divided	218.471	213.876	1.02148
1378	OCRL	inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [swissprot;acc:q01968]	Subtracted	220.987	225.468	4.481
	SALL3	sal-like protein 3 (zinc finger protein sall3) (hsall3). [swissprot;acc:q9bxa9]	Divided	218.47	213.876	1.02148
1379	RAD23B	uv excision repair protein rad23 homolog b (hhr23b) (xp-c repair complementing complex 58 kda protein) (p58). [swissprot;acc:p54727]	Subtracted	220.987	225.468	4.481
	RERE	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	Divided	218.47	213.875	1.02148
1380	no value	myosin vi. [swissprot;acc:q9um54]	Subtracted	220.987	225.468	4.481
	USP8	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	Divided	218.47	213.876	1.02148
1381	MPP2	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	Subtracted	228.513	232.983	4.47
	ROD1	rod1 regulator of differentiation 1; fission yeast differentiation regulator; regulator of differentiation (in s. pombi) 1; regulator of differentiation (in s. pombe) 1. [refseq;acc:nm_005156]	Divided	218.47	213.876	1.02148
1382	PPP2R5E	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	Subtracted	130.066	134.527	4.461
	PTBP2	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	Divided	218.47	213.876	1.02148
1383	AAK1	adaptor-associated kinase 1. [refseq;acc:nm_014911]
	CCNG2	cyclin g2. [swissprot;acc:q16589]	Subtracted	130.066	134.527	4.461
1384	ATN1	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	Divided	218.471	213.876	1.02148
	CCNG1	cyclin g1 (cyclin g). [swissprot;acc:p51959]	Subtracted	130.066	134.527	4.461
1385	no value	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]	Divided	218.47	213.875	1.02148
	PPP2R5A	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Subtracted	130.066	134.527	4.461
1386	ARHGAP21	rho-gtpase activating protein 10. [refseq;acc:nm_020824]	Divided	218.47	213.876	1.02148
	TNPO3	transportin-sr; importin 12. [refseq;acc:nm_012470]	Subtracted	225.305	229.766	4.461
1387	BOLA2B	my016 protein. [sptrembl;acc:q9h3k6]		224.755	229.2	4.445
	SALL1	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2]	Divided	218.47	213.875	1.02148
1388	ATP1A1	sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [swissprot;acc:p05023]	Subtracted	214.717	219.157	4.44
	SALL4	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	Divided	218.471	213.876	1.02148
1389	BCKDHB	2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953]		218.47	213.875
	CTSL2	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	Subtracted	214.717	219.157	4.44
1390	CNOT4	ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	Divided	218.47	213.875	1.02148
	CTSL1	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	Subtracted	214.717	219.157	4.44
1391	ATP1A3	sodium/potassium-transporting atpase alpha-3 chain (ec 3.6.3.9) (sodium pump 3) (na+/k+ atpase 3) (alpha(iii)). [swissprot;acc:p13637]
	PICALM	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492]	Divided	218.47	213.875	1.02148
1392	ATP1A2	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993]	Subtracted	214.717	219.157	4.44
	SNAP91	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	Divided	218.471	213.876	1.02148
1393	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]	Subtracted	130.289	134.713	4.424
	RC3H2	membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835]	Divided	218.47	213.875	1.02148
1394	PTBP1	polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599]
	ZMPSTE24	caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]	Subtracted	226.532	222.117	4.415
1395	GAS7	growth-arrest-specific protein 7 (gas-7). [swissprot;acc:o60861]	Divided	218.47	213.876	1.02148
	HSPB1	heat shock 27 kda protein (hsp 27) (stress-responsive protein 27) (srp27) (estrogen-regulated 24 kda protein) (28 kda heat shock protein). [swissprot;acc:p04792]	Subtracted	221.817	226.23	4.413
1396	EYA1	eyes absent homolog 1. [swissprot;acc:q99502]	Divided	218.463	213.872	1.02147
	NCK1	cytoplasmic protein nck1 (nck adaptor protein 1) (sh2/sh3 adaptor protein nck-alpha). [swissprot;acc:p16333]	Subtracted	205.185	200.784	4.401
1397	HSPB8	alpha crystallin c chain (small stress protein-like protein hsp22) (e2ig1) (protein kinase h11). [swissprot;acc:q9ujy1]		221.804	226.194	4.39
	RPS8	40s ribosomal protein s8. [swissprot;acc:p09058]	Divided	218.64	214.049	1.02145
1398	EYA4	eyes absent homolog 4. [swissprot;acc:o95677]		218.449	213.864	1.02144
	WDR26	wd repeat domain 26. [refseq;acc:nm_025160]	Subtracted	213.351	217.74	4.389
1399	EYA2	eyes absent homolog 2. [swissprot;acc:o00167]	Divided	218.417	213.848	1.02137
	MPP6	maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [swissprot;acc:q9nzw5]	Subtracted	228.469	232.855	4.386
1400	ATF7	cyclic-amp-dependent transcription factor atf-7 (activating transcription factor 7) (transcription factor atf-a). [swissprot;acc:p17544]	Divided	218.667	214.118	1.02125
	PROSC	proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903]	Subtracted	170.28	165.898	4.382

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.