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

Results: HTML CSV LaTeX

Showing element 6408 to 6457 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
3204	VRK2	vaccinia related kinase 2; vaccinia-related kinase-2. [refseq;acc:nm_006296]	High confidence	0.00001	0.00001	1
3205	RB1CC1	rb1-inducible coiled coil protein 1. [refseq;acc:nm_014781]
	SORCS2	vps10 domain-containing receptor sorcs2 precursor. [swissprot;acc:q96pq0]	Low confidence	197.377	194.268	1.016
3206	C20orf43	protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	High confidence	0.00001	0.00001	1
	SORCS3	vps10 domain-containing receptor sorcs3 precursor. [swissprot;acc:q9upu3]	Low confidence	197.377	194.268	1.016
3207	C8B	complement component c8 beta chain precursor. [swissprot;acc:p07358]	High confidence	0.00001	0.00001	1
	UCHL1	ubiquitin carboxyl-terminal hydrolase isozyme l1 (ec 3.4.19.12) (uch- l1) (ubiquitin thiolesterase l1) (neuron cytoplasmic protein 9.5) (pgp 9.5) (pgp9.5). [swissprot;acc:p09936]	Low confidence	207.547	204.278	1.016
3208	RUNX3	runt-related transcription factor 3 (core-binding factor, alpha 3 subunit) (cbf-alpha 3) (acute myeloid leukemia 2 protein) (oncogene aml-2) (polyomavirus enhancer binding protein 2 alpha c subunit) (pebp2-alpha c) (pea2-alpha c) (sl3-3 enhancer factor 1 alpha c subunit) (sl3/akv core-binding factor alpha c subunit). [swissprot;acc:q13761]	High confidence	0.00001	0.00001	1
	SORL1	sortilin-related receptor precursor (sorting protein-related receptor containing ldlr class a repeats) (sorla) (sorla-1) (low-density lipoprotein receptor relative with 11 ligand-binding repeats) (ldlr relative with 11 ligand-binding repeats) (lr11). [swissprot;acc:q92673]	Low confidence	197.377	194.268	1.016
3209	MNAT1	cdk-activating kinase assembly factor mat1 (ring finger protein mat1) (menage a trois) (cdk7/cyclin h assembly factor) (p36) (p35) (cyclin g1 interacting protein). [swissprot;acc:p51948]	High confidence	0.00001	0.00001	1
	UCHL3	ubiquitin carboxyl-terminal hydrolase isozyme l3 (ec 3.4.19.12) (uch- l3) (ubiquitin thiolesterase l3). [swissprot;acc:p15374]	Low confidence	207.547	204.278	1.016
3210	CEP70	p10-binding protein. [refseq;acc:nm_024491]		196.347	193.255
	ZRANB1	trabid protein. [swissprot;acc:q9ugi0]	High confidence	0.00001	0.00001	1
3211	CYP24A1	cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973]
	SORCS1	vps10 domain-containing receptor sorcs1 precursor (hsorcs). [swissprot;acc:q8wy21]	Low confidence	197.377	194.268	1.016
3212	AASS	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]		202.212	199.028
	RALBP1	rala binding protein 1; rala-binding protein. [refseq;acc:nm_006788]	High confidence	0.00001	0.00001	1
3213	AK2	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	Low confidence	201.971	198.79	1.016
	MDH1	malate dehydrogenase, cytoplasmic (ec 1.1.1.37). [swissprot;acc:p40925]	High confidence	0.00001	0.00001	1
3214	HECW1	hect type e3 ubiquitin ligase. [refseq;acc:nm_015052]	Low confidence	207.551	204.283	1.016
	NUB1	bs4 protein (ny-ren-18 antigen). [swissprot;acc:q9y5a7]	High confidence	0.00001	0.00001	1
3215	CCNB3	cyclin b3 isoform 1. [refseq;acc:nm_033670]	Low confidence	202.049	198.87	1.01599
	MBTPS2	membrane-bound transcription factor site 2 protease (ec 3.4.24.-) (site-2 protease) (sterol-regulatory element-binding proteins intramembrane protease). [swissprot;acc:o43462]	High confidence	0.00001	0.00001	1
3216	ERCC1	dna excision repair protein ercc-1. [swissprot;acc:p07992]
	LMCD1	lim and cysteine-rich domains protein 1 (dyxin). [swissprot;acc:q9nzu5]	Low confidence	200.573	197.416	1.01599
3217	SCMH1	sex comb on midleg homolog 1. [refseq;acc:nm_012236]	High confidence	0.00001	0.00001	1
	SUMO1P3	ubiquitin-like protein smt3c precursor (ubiquitin-homology domain protein pic1) (ubiquitin-like protein ubl1) (ubiquitin-related protein sumo-1) (gap modifying protein 1) (gmp1) (sentrin). [swissprot;acc:q93068]	Low confidence	200.841	197.682	1.01598
3218	MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	High confidence	0.00001	0.00001	1
	UGDH	udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [swissprot;acc:o60701]	Low confidence	200.841	197.682	1.01598
3219	TES	testin (tess). [swissprot;acc:q9ugi8]		200.581	197.428	1.01597
	VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	High confidence	0.00001	0.00001	1
3220	no value	60s ribosomal protein l39. [swissprot;acc:p02404]	Low confidence	202.665	199.481	1.01596
	TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	High confidence	0.00001	0.00001	1
3221	HCCS	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	Low confidence	200.125	196.981	1.01596
	PAFAH1B1	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]	High confidence	0.00001	0.00001	1
3222	no value	serine/threonine kinase 38 like. [refseq;acc:nm_015000]	Low confidence	200.25	197.107	1.01595
	ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	High confidence	0.00001	0.00001	1
3223	KLHL1	kelch-like protein 1. [swissprot;acc:q9nr64]	Low confidence	204.526	201.316	1.01595
	RALA	ras-related protein ral-a. [swissprot;acc:p11233]	High confidence	0.00001	0.00001	1
3224	ITGA3	integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [swissprot;acc:p26006]
	SMAP1	stromal membrane-associated protein; stromal membrane-associated protein smap1a. [refseq;acc:nm_021940]	Low confidence	202.662	199.481	1.01595
3225	HSPB6	heat-shock 20 kda like-protein p20. [swissprot;acc:o14558]	High confidence	0.00001	0.00001	1
	STK38	serine/threonine kinase 38; serine threonine protein kinase. [refseq;acc:nm_007271]	Low confidence	200.247	197.104	1.01595
3226	no value	ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]	High confidence	0.00001	0.00001	1
	KLHL5	kelch-like protein 5. [swissprot;acc:q96pq7]	Low confidence	204.526	201.316	1.01595
3227	ICA1	69 kda islet cell autoantigen (ica69) (islet cell autoantigen 1) (islet cell autoantigen p69) (icap69). [swissprot;acc:q05084]	High confidence	0.00001	0.00001	1
	KLHL4	kelch-like protein 4. [swissprot;acc:q9c0h6]	Low confidence	204.526	201.316	1.01595
3228	no value	alpha-n-acetylgalactosaminidase precursor (ec 3.2.1.49) (alpha- galactosidase b). [swissprot;acc:p17050]
	SCYL3	ezrin-binding partner pace-1 isoform 1. [refseq;acc:nm_020423]	High confidence	0.00001	0.00001	1
3229	COX6B1	cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	Low confidence	201.768	198.603	1.01594

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.