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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1812 to 1861 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
906	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Low confidence	203.111	198.104	1.02527
907	JUP	junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	High confidence	223.906	215.653	1.03827
	PPP3CA	serine/threonine protein phosphatase 2b catalytic subunit, alpha isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, alpha isoform) (cam-prp catalytic subunit). [swissprot;acc:q08209]	Low confidence	201.065	196.121	1.02521
908	no value	tax interaction protein 1. [refseq;acc:nm_014604]	High confidence	223.906	215.653	1.03827
	HAT1	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Low confidence	203.746	198.738	1.0252
909	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]		201.44	196.49	1.02519
	SEPT1	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	High confidence	142.077	136.846	1.03823
910	no value	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]		217.168	209.207	1.03805
	MYEF2	myelin gene expression factor 2. [refseq;acc:nm_016132]	Low confidence	208.483	213.734	1.02519
911	no value	ero1-like. [refseq;acc:nm_014584]	High confidence	217.168	209.207	1.03805
	LMAN1	ergic-53 protein precursor (er-golgi intermediate compartment 53 kda protein) (lectin, mannose-binding 1) (gp58) (intracellular mannose specific lectin mr60). [swissprot;acc:p49257]	Low confidence	203.401	198.407	1.02517
912	BDH1	d-beta-hydroxybutyrate dehydrogenase, mitochondrial precursor (ec 1.1.1.30) (bdh) (3-hydroxybutyrate dehydrogenase). [swissprot;acc:q02338]		208.387	203.272	1.02516
	WDR3	wd-repeat protein 3. [swissprot;acc:q9unx4]	High confidence	243.896	234.96	1.03803
913	FDPS	farnesyl pyrophosphate synthetase (fpp synthetase) (fps) (farnesyl diphosphate synthetase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10)]. [swissprot;acc:p14324]	Low confidence	204.141	199.13	1.02516
	TGS1	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	High confidence	210.863	218.878	1.03801
914	DFFA	dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [swissprot;acc:o00273]	Low confidence	208.387	203.272	1.02516
	GOPC	pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399]	High confidence	210.863	218.878	1.03801
915	EIF6	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	Low confidence	203.01	198.032	1.02514
	TRMU	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	High confidence	146.036	140.692	1.03798
916	HAO2	hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [swissprot;acc:q9nyq3]		232.512	241.288	1.03774
	OCA2	p protein (melanocyte-specific transporter protein). [swissprot;acc:q04671]	Low confidence	201.059	196.129	1.02514
917	CDC73	parafibromin. [refseq;acc:nm_024529]	High confidence	239.704	230.991	1.03772
	LIN7A	lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [refseq;acc:nm_004664]	Low confidence	207.884	202.788	1.02513
918	SORBS1	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	High confidence	212.952	205.292	1.03731
	SORT1	sortilin precursor (glycoprotein 95) (gp95) (neurotensin receptor 3) (nt3) (100 kda nt receptor). [swissprot;acc:q99523]	Low confidence	198.577	193.713	1.02511
919	MDN1	midasin (midas-containing protein). [swissprot;acc:q9nu22]	High confidence	237.218	228.698	1.03725
	PPP3CB	serine/threonine protein phosphatase 2b catalytic subunit, beta isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, beta isoform) (cam-prp catalytic subunit). [swissprot;acc:p16299]	Low confidence	201.056	196.132	1.02511
920	DEAF1	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398]	High confidence	236.741	245.547	1.0372
	UBC	ubiquitin. [swissprot;acc:p02248]	Low confidence	193.011	188.286	1.02509
921	PPP3CC	serine/threonine protein phosphatase 2b catalytic subunit, gamma isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, gamma isoform) (calcineurin, testis-specific catalytic subunit) (cam-prp catalytic subunit). [swissprot;acc:p48454]		201.054	196.135	1.02508
	RIOK1	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]	High confidence	236.741	245.547	1.0372
922	GPKOW	t54 protein. [swissprot;acc:q92917]	Low confidence	204.822	199.81	1.02508
	MARK1	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]	High confidence	236.741	245.547	1.0372
923	LIN7B	lin-7 homolog b; lin-7b protein; likely ortholog of mouse lin-7b; mammalian lin-7 protein 2; likely orholog of mouse lin 7 homolog b (c. elegans). [refseq;acc:nm_022165]	Low confidence	207.877	202.795	1.02506
	MARK2	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]	High confidence	236.741	245.547	1.0372
924	HYAL3	interferon-related developmental regulator 2 (skmc15 protein). [swissprot;acc:q12894]	Low confidence	203.086	198.123	1.02505
	SPO11	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	High confidence	236.741	245.547	1.0372
925	FARSA	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	Low confidence	201.128	196.213	1.02505
	PEF1	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	High confidence	215.665	207.942	1.03714
926	GLUL	glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104]	Low confidence	201.442	196.519	1.02505
	IMMP2L	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	High confidence	217.942	210.139	1.03713
927	no value	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]
	CUTL1	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	Low confidence	198.264	193.42	1.02504
928	ETV6	transcription factor etv6 (ets-related protein tel1) (tel) (ets translocation variant 6). [swissprot;acc:p41212]		205.137	200.128	1.02503
	MTRF1	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	High confidence	225.976	218.017	1.03651
929	CUTL2	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	Low confidence	198.26	193.418	1.02503
	MPDU1	mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352]	High confidence	225.955	218.015	1.03642
930	C19orf56	protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]	Low confidence	205.137	200.128	1.02503
	PKM2	pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618]	High confidence	231.357	239.778	1.0364
931	BHLHB4	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]		159.13	164.917	1.03637

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.