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

Results: HTML CSV LaTeX

Showing element 1525 to 1574 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
763	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	CHD5	Low confidence	213.929	208.318	1.02693
	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	N6AMT1	High confidence	228.78	218.091	1.04901
764	homeobox protein nkx-2.5 (homeobox protein nk-2 homolog e) (cardiac- specific homeobox) (homeobox protein csx). [swissprot;acc:p52952]	NKX2-5	Low confidence	206.038	200.638	1.02691
	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]	PRPF3	High confidence	222.082	211.707	1.04901
765	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]	HEMK1		229.045	218.343
	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]	PDIA3	Low confidence	204.144	198.795	1.02691
766	cyclin fold protein 1; cyclin-box carrying protein 1. [refseq;acc:nm_145012]	CCNY		206.437	201.034	1.02688
	protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6]	TRIOBP	High confidence	213.804	224.226	1.04875
767	rho interacting protein 3. [refseq;acc:nm_015134]	no value		213.803	224.224	1.04874
	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	SMARCB1	Low confidence	206.437	201.034	1.02688
768	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	DNAJB4	High confidence	210.946	221.225	1.04873
	ubiquitin-conjugating enzyme e2-32 kda complementing (ec 6.3.2.19) (ubiquitin-protein ligase) (ubiquitin carrier protein) (e2-cdc34). [swissprot;acc:p49427]	CDC34	Low confidence	199.792	194.573	1.02682
769	cab2. [refseq;acc:nm_033419]	PERLD1	High confidence	210.946	221.225	1.04873
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	no value	Low confidence	198.33	193.155	1.02679
770	dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]	DNAJB5	High confidence	210.946	221.225	1.04873
	orphan nuclear receptor tr4 (orphan nuclear receptor tak1). [swissprot;acc:p49116]	NR2C2	Low confidence	206.636	212.168	1.02677
771	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]	DNAJB1	High confidence	210.946	221.225	1.04873
	synaptosomal-associated protein 29 (snap-29) (vesicle-membrane fusion protein snap-29) (soluble 29 kda nsf attachment protein). [swissprot;acc:o95721]	SNAP29	Low confidence	206.636	212.168	1.02677
772	eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]	ETF1	High confidence	210.946	221.225	1.04873
	protein phosphatase 1, regulatory (inhibitor) subunit 3b. [refseq;acc:nm_024607]	PPP1R3B	Low confidence	203.48	198.181	1.02674
773	protein containing cxxc domain 2. [refseq;acc:nm_032590]	FBXL10		202.951	208.378
	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	VPS52	High confidence	210.946	221.225	1.04873
774	multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]	MCFD2		225.996	215.535	1.04854
	ubiquitin associated protein 2 isoform 1; ad-012 protein. [refseq;acc:nm_018449]	UBAP2	Low confidence	205.905	200.545	1.02673
775	histone deacetylase 2 (hd2). [swissprot;acc:q92769]	no value	High confidence	226.003	215.541	1.04854
	transcription factor iib. [refseq;acc:nm_013242]	C16orf80	Low confidence	205.668	200.313	1.02673
776	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]	no value	High confidence	225.996	215.535	1.04854
	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]	MAD1L1	Low confidence	208.017	202.601	1.02673
777	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]	AP1S3		204.807	199.484	1.02668
	histone deacetylase 1 (hd1). [swissprot;acc:q13547]	HDAC1	High confidence	225.989	215.53	1.04853
778	sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7]	SNX6		209.191	219.332	1.04848
	wd repeat domain 26. [refseq;acc:nm_025160]	WDR26	Low confidence	188.145	183.258	1.02667
779	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]	ABI2		202.48	197.229	1.02662
	deoxycytidylate deaminase (ec 3.5.4.12) (dcmp deaminase). [swissprot;acc:p32321]	DCTD	High confidence	230.516	241.641	1.04826
780	dna-directed rna polymerase ii 14.4 kda polypeptide (ec 2.7.7.6) (rpb6) (rpb14.4) (rpabc2). [swissprot;acc:p41584]	POLR2F		232.762	243.933	1.04799
	importin 9. [refseq;acc:nm_018085]	no value	Low confidence	204.192	198.902	1.0266
781	protein arginine n-methyltransferase (ec 2.1.1.-). [swissprot;acc:q9nvm4]	PRMT7		203.591	198.319	1.02658
	ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [refseq;acc:nm_016183]	MRTO4	High confidence	245.84	257.636	1.04798
782	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	PLDN	Low confidence	203.591	198.319	1.02658
	translin. [swissprot;acc:q15631]	no value	High confidence	224.385	235.131	1.04789
783	porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	HMBS	Low confidence	204.238	198.951	1.02657
	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]	TSNAX	High confidence	224.385	235.131	1.04789
784	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]	PQBP1
	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	XAB2	Low confidence	201.338	196.126	1.02657
785	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863]	NET1	High confidence	244.447	233.508	1.04685
	spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470]	ABI1	Low confidence	202.469	197.233	1.02655
786	f-box and leucine-rich repeat protein 11; f-box protein fbl11. [refseq;acc:nm_012308]	FBXL11		202.957	208.337	1.02651
	rho guanine nucleotide exchange factor 3; rhogef protein; 59.8 kda protein; exchange factor found in platelets and leukemic and neuronal tissues, xpln. [refseq;acc:nm_019555]	ARHGEF3	High confidence	244.447	233.508	1.04685
787	atpase, h+ transporting, lysosomal 42kda, v1 subunit c isoform 2; v-atpase c2 subunit. [refseq;acc:nm_144583]	ATP6V1C2	Low confidence	202.489	197.259	1.02651
	down-regulated in metastasis. [refseq;acc:nm_014503]	UTP20	High confidence	244.447	233.508	1.04685

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.