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	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1501 to 1550 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	red	network_comparison	green
376	no value	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	Rooted	50.2554	1.10285	45.5688
	C10orf83	44050 protein. [refseq;acc:nm_178832]	Measured	17385.9	1.16769	14889.2
	DDX56	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	Ranked	257.017	1.09395	234.945
	LGALS4	galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470]	Squared	46021.4	1.2345	56813.2
377	MRPL2	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	Rooted	50.2554	1.10285	45.5687
	ODC1	ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926]	Squared	33044.9	1.23412	40781.4
	POLR1A	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	Ranked	242.691	1.09391	265.481
	PPP1R8	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	Measured	17385.9	1.16769	14889.2
378	EIF4G3	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	Squared	15034.5	1.23398	18552.2
	MRPL4	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Rooted	50.5816	1.10263	45.8738
	NFU1	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Measured	12471.7	1.16758	14561.7
	RPL30	60s ribosomal protein l30. [swissprot;acc:p04645]	Ranked	242.593	1.09387	265.365
379	AASS	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	Squared	33010.8	1.23391	40732.2
	AK2	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	Ranked	241.509	1.0938	264.163
	GULP1	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Rooted	59.5128	1.10235	65.604
	RRM2	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Measured	6704.44	1.16512	7811.45
380	no value	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	Ranked	242.109	1.09368	264.79
	ACADVL	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Measured	12998.5	1.16461	15138.2
	ADC	ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [swissprot;acc:q96a70]	Squared	32991.5	1.23379	40704.5
	CAPS	calcyphosine. [swissprot;acc:q13938]	Rooted	59.5128	1.10235	65.604
381	AZIN1	ornithine decarboxylase antizyme inhibitor. [swissprot;acc:o14977]	Squared	32987.4	1.23376	40698.5
	CRNKL1	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Rooted	59.5128	1.10235	65.604
	SCYE1	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	Measured	5246.01	1.16456	6109.31
	TAF7	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Ranked	200.586	1.09357	183.423
382	no value	rna-binding protein. [refseq;acc:nm_019027]	Squared	15043.7	1.23375	18560.1
	PARK2	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	Measured	4533.74	1.16447	5279.4
	RPS23	40s ribosomal protein s23. [swissprot;acc:p39028]	Rooted	49.8325	1.1023	45.2077
	TAF7L	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	Ranked	200.791	1.09328	183.66
383	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Squared	15043.7	1.23375	18560.1
		hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	Measured	4533.74	1.16447	5279.4
	MRPS12	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	Rooted	49.8325	1.1023	45.2077
	RBM39	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	Ranked	237.862	1.09242	217.739
384	no value	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	Rooted	50.7723	1.10229	46.0607
		cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	Measured	4533.74	1.16447	5279.4
	E2F1	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	Ranked	266.421	1.09083	244.236
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Squared	15043.7	1.23375	18560.1
385	BCCIP	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Rooted	50.7723	1.10229	46.0607
	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	Ranked	266.421	1.09083	244.236
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Squared	15043.7	1.23375	18560.1
	PSIP1	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	Measured	4533.74	1.16447	5279.4
386	no value	scratch; scratch 1. [refseq;acc:nm_031309]	Squared	40388.9	1.23369	49827.5
	EIF1B	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Rooted	50.0513	1.10215	45.4124
	RPL8	60s ribosomal protein l8. [swissprot;acc:p25120]	Measured	4533.74	1.16447	5279.4
	RPS14	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	Ranked	242.238	1.09029	264.11
387	no value	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]
		60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	Rooted	50.3345	1.10209	45.6718
	EIF4G1	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Squared	15053	1.23351	18568
	HDGF	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]	Measured	4533.74	1.16447	5279.4
388	no value	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	Squared	40315.7	1.23318	49716.4
		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Ranked	227.575	1.09015	208.756

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.