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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1508 to 1557 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	network_comparison	green
754	SPCS2	microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]	High confidence	224.434	1.04968	235.583
755	EPS8L2	epidermal growth factor receptor pathway substrate 8-like protein 2; eps8-related protein 2; epidermal growth factor receptor pathway substrate 8-related protein 2. [refseq;acc:nm_022772]	Low confidence	206.435	1.02703	201.001
	UMPS	uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172]	High confidence	224.434	1.04968	235.583
756	CLPTM1	cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Low confidence	201.703	1.02703	196.395
757	BPI	bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213]	High confidence	224.434	1.04968	235.583
	EGFR	epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533]	Low confidence	211.344	1.027	205.788
758	ERBB2	receptor protein-tyrosine kinase erbb-2 precursor (ec 2.7.1.112) (p185erbb2) (neu proto-oncogene) (c-erbb-2) (tyrosine kinase-type cell surface receptor her2) (mln 19). [swissprot;acc:p04626]		211.342	1.02699	205.787
	PLTP	phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058]	High confidence	224.434	1.04968	235.583
759	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	Low confidence	200.18	1.02697	194.922
	OSTF1	osteoclast stimulating factor 1. [swissprot;acc:q92882]	High confidence	231.809	1.04952	243.289
760	NAT10	upf0202 protein kiaa1709. [swissprot;acc:q9h0a0]		246.055	1.04946	234.458
	TNPO3	transportin-sr; importin 12. [refseq;acc:nm_012470]	Low confidence	191.294	1.02697	186.27
761	CBLB	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	High confidence	213.325	1.0493	203.303
	NKX2-3	homeobox protein nkx-2.3 (homeobox protein nkx-2.3) (homeobox protein nk-2 homolog c). [swissprot;acc:q8tau0]	Low confidence	206.052	1.02695	200.644
762	CBL	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	High confidence	213.256	1.0493	203.237
	CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	Low confidence	213.926	1.02694	208.315
763	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]		213.929	1.02693	208.318
	N6AMT1	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	High confidence	228.78	1.04901	218.091
764	NKX2-5	homeobox protein nkx-2.5 (homeobox protein nk-2 homolog e) (cardiac- specific homeobox) (homeobox protein csx). [swissprot;acc:p52952]	Low confidence	206.038	1.02691	200.638
	PRPF3	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]	High confidence	222.082	1.04901	211.707
765	HEMK1	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]		229.045		218.343
	PDIA3	protein disulfide isomerase a3 precursor (ec 5.3.4.1) (disulfide isomerase er-60) (erp60) (58 kda microsomal protein) (p58) (erp57) (58 kda glucose regulated protein). [swissprot;acc:p30101]	Low confidence	204.144	1.02691	198.795
766	CCNY	cyclin fold protein 1; cyclin-box carrying protein 1. [refseq;acc:nm_145012]		206.437	1.02688	201.034
	TRIOBP	protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6]	High confidence	213.804	1.04875	224.226
767	no value	rho interacting protein 3. [refseq;acc:nm_015134]		213.803	1.04874	224.224
	SMARCB1	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	Low confidence	206.437	1.02688	201.034
768	CDC34	ubiquitin-conjugating enzyme e2-32 kda complementing (ec 6.3.2.19) (ubiquitin-protein ligase) (ubiquitin carrier protein) (e2-cdc34). [swissprot;acc:p49427]		199.792	1.02682	194.573
	DNAJB4	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	High confidence	210.946	1.04873	221.225
769	no value	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	Low confidence	198.33	1.02679	193.155
	PERLD1	cab2. [refseq;acc:nm_033419]	High confidence	210.946	1.04873	221.225
770	DNAJB5	dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]
	NR2C2	orphan nuclear receptor tr4 (orphan nuclear receptor tak1). [swissprot;acc:p49116]	Low confidence	206.636	1.02677	212.168
771	DNAJB1	dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685]	High confidence	210.946	1.04873	221.225
	SNAP29	synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [swissprot;acc:o95721]	Low confidence	206.636	1.02677	212.168
772	ETF1	eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]	High confidence	210.946	1.04873	221.225
	PPP1R3B	protein phosphatase 1, regulatory (inhibitor) subunit 3b. [refseq;acc:nm_024607]	Low confidence	203.48	1.02674	198.181
773	FBXL10	protein containing cxxc domain 2. [refseq;acc:nm_032590]		202.951		208.378
	VPS52	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	High confidence	210.946	1.04873	221.225
774	MCFD2	multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]		225.996	1.04854	215.535
	UBAP2	ubiquitin associated protein 2 isoform 1; ad-012 protein. [refseq;acc:nm_018449]	Low confidence	205.905	1.02673	200.545
775	no value	histone deacetylase 2 (hd2). [swissprot;acc:q92769]	High confidence	226.003	1.04854	215.541
	C16orf80	transcription factor iib. [refseq;acc:nm_013242]	Low confidence	205.668	1.02673	200.313
776	no value	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	High confidence	225.996	1.04854	215.535
	MAD1L1	mad1-like 1; mad1 (mitotic arrest deficient, yeast, homolog)-like 1; mitotic-arrest deficient 1, yeast, homolog-like 1; tumor protein p53 inducible protein 9. [refseq;acc:nm_003550]	Low confidence	208.017	1.02673	202.601
777	AP1S3	adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3]		204.807	1.02668	199.484
	HDAC1	histone deacetylase 1 (hd1). [swissprot;acc:q13547]	High confidence	225.989	1.04853	215.53
778	SNX6	sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7]		209.191	1.04848	219.332
	WDR26	wd repeat domain 26. [refseq;acc:nm_025160]	Low confidence	188.145	1.02667	183.258
779	ABI2	abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759]		202.48	1.02662	197.229

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.