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

Results: HTML CSV LaTeX

Showing element 2858 to 2907 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1429	WDR26	wd repeat domain 26. [refseq;acc:nm_025160]	High confidence	213.351	217.74	1.02057
1430	ARFIP1	arfaptin 1. [swissprot;acc:p53367]	Low confidence	203.206	198.891	1.0217
	DUT	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	High confidence	187.114	190.925	1.02037
1431	RAD23A	uv excision repair protein rad23 homolog a (hhr23a). [swissprot;acc:p54725]		220.987	225.468	1.02028
	RNF25	ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1]	Low confidence	203.557	207.974	1.0217
1432	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]	High confidence	220.987	225.468	1.02028
	RERE	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	Low confidence	203.206	198.891	1.0217
1433	OCRL	inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [swissprot;acc:q01968]	High confidence	220.987	225.468	1.02028
	RAB1A	ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]	Low confidence	201.287	197.011	1.0217
1434	ARFIP2	arfaptin 2 (partner of rac1) (por1 protein). [swissprot;acc:p53365]		203.207	198.891
	RAD23B	uv excision repair protein rad23 homolog b (hhr23b) (xp-c repair complementing complex 58 kda protein) (p58). [swissprot;acc:p54727]	High confidence	220.987	225.468	1.02028
1435	no value	myosin vi. [swissprot;acc:q9um54]
	HOXB8	homeobox protein hox-b8 (hox-2d) (hox-2.4). [swissprot;acc:p17481]	Low confidence	203.208	198.892	1.0217
1436	EVI5L	similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245]	High confidence	218.829	214.493	1.02022
	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]	Low confidence	203.207	198.891	1.0217
1437	EVI5	ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665]	High confidence	218.829	214.493	1.02022
	PTBP2	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	Low confidence	203.207	198.891	1.0217
1438	ATN1	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]		203.208	198.892
	PGGT1B	geranylgeranyl transferase type i beta subunit (ec 2.5.1.-) (type i protein geranyl-geranyltransferase beta subunit) (ggtase-i-beta). [swissprot;acc:p53609]	High confidence	225.039	229.573	1.02015
1439	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]	Low confidence	203.206	198.891	1.0217
	FADS3	fatty acid desaturase 3; linoleoyl-coa desaturase (delta-6-desaturase)-like 3; delta-6 fatty acid desaturase. [refseq;acc:nm_021727]	High confidence	225.039	229.573	1.02015
1440	PTBP1	polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599]	Low confidence	203.206	198.891	1.0217
	SMAD4	mothers against decapentaplegic homolog 4 (smad 4) (mothers against dpp homolog 4) (deletion target in pancreatic carcinoma 4) (hsmad4). [swissprot;acc:q13485]	High confidence	225.039	229.573	1.02015
1441	FADS2	fatty acid desaturase 2; linoleoyl-coa desaturase (delta-6-desaturase)-like 2; delta-6 fatty acid desaturase. [refseq;acc:nm_004265]
	SF1	splicing factor 1; zinc finger protein 162. [refseq;acc:nm_004630]	Low confidence	202.119	197.829	1.02169
1442	no value	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	High confidence	225.039	229.573	1.02015
	MLF2	myeloid leukemia factor 2 (myelodysplasia-myeloid leukemia factor 2). [swissprot;acc:q15773]	Low confidence	197.934	193.742	1.02164
1443	GLUD2	glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448]	High confidence	203.908	207.998	1.02006
	MLF1	myeloid leukemia factor 1 (myelodysplasia-myeloid leukemia factor 1). [swissprot;acc:p58340]	Low confidence	197.891	193.702	1.02163
1444	GLUDP5	glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p00367]	High confidence	203.908	207.998	1.02006
	TIMM22	mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584]	Low confidence	200.812	196.561	1.02163
1445	EYA4	eyes absent homolog 4. [swissprot;acc:o95677]		203.183	198.881
	PCF11	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	High confidence	134.233	136.922	1.02003
1446	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]		221.817	226.23	1.01989
	SYT14	synaptotagmin xiv. [refseq;acc:nm_153262]	Low confidence	203.719	199.408	1.02162
1447	POLE3	dna polymerase epsilon p17 subunit (dna polymerase epsilon subunit 3) (chromatin accessibility complex 17) (huchrac17) (chrac-17). [swissprot;acc:q9nrf9]	High confidence	250.854	255.842	1.01988
	PRR5	rho-gtpase-activating protein 8. [swissprot;acc:q9nsg0]	Low confidence	205.492	201.145	1.02161
1448	DCP1A	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]		198.814	194.609
	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]	High confidence	226.532	222.117	1.01988
1449	GCN1L1	hsgcn1 (fragment). [sptrembl;acc:q99736]	Low confidence	201.88	197.609	1.02161
	TNPO3	transportin-sr; importin 12. [refseq;acc:nm_012470]	High confidence	225.305	229.766	1.0198
1450	EYA2	eyes absent homolog 2. [swissprot;acc:o00167]	Low confidence	203.166	198.869	1.02161
	HSPB8	alpha crystallin c chain (small stress protein-like protein hsp22) (e2ig1) (protein kinase h11). [swissprot;acc:q9ujy1]	High confidence	221.804	226.194	1.01979
1451	BOLA2B	my016 protein. [sptrembl;acc:q9h3k6]		224.755	229.2	1.01978
	CHST13	carbohydrate (chondroitin 4) sulfotransferase 13; chondroitin 4-o-sulfotransferase 3. [refseq;acc:nm_152889]	Low confidence	204.525	200.2	1.0216
1452	no value	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	High confidence	160.381	163.554	1.01978
	CHST11	carbohydrate (chondroitin 4) sulfotransferase 11; chondroitin 4-sulfotransferase. [refseq;acc:nm_018413]	Low confidence	204.525	200.2	1.0216
1453	CUL5	vasopressin-activated calcium-mobilizing receptor (vacm-1) (cullin homolog 5) (cul-5). [swissprot;acc:q93034]		200.787	196.542
	RTN4	reticulon 4 (neurite outgrowth inhibitor) (nogo protein) (foocen) (neuroendocrine-specific protein) (nsp) (neuroendocrine specific protein c homolog) (rtn-x) (reticulon 5) (my043 protein). [swissprot;acc:q9nqc3]	High confidence	207.038	211.13	1.01976
1454	EIF3EIP	eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]	Low confidence	204.525	200.2	1.0216

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.