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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1830 to 1879 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
915	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	TRMU	High confidence	146.036	140.692	1.03798
916	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]	HAO2		232.512	241.288	1.03774
	p protein (melanocyte-specific transporter protein). [swissprot;acc:q04671]	OCA2	Low confidence	201.059	196.129	1.02514
917	lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [refseq;acc:nm_004664]	LIN7A		207.884	202.788	1.02513
	parafibromin. [refseq;acc:nm_024529]	CDC73	High confidence	239.704	230.991	1.03772
918	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	SORBS1		212.952	205.292	1.03731
	sortilin precursor (glycoprotein 95) (gp95) (neurotensin receptor 3) (nt3) (100 kda nt receptor). [swissprot;acc:q99523]	SORT1	Low confidence	198.577	193.713	1.02511
919	midasin (midas-containing protein). [swissprot;acc:q9nu22]	MDN1	High confidence	237.218	228.698	1.03725
	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]	PPP3CB	Low confidence	201.056	196.132	1.02511
920	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398]	DEAF1	High confidence	236.741	245.547	1.0372
	ubiquitin. [swissprot;acc:p02248]	UBC	Low confidence	193.011	188.286	1.02509
921	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]	RIOK1	High confidence	236.741	245.547	1.0372
	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]	PPP3CC	Low confidence	201.054	196.135	1.02508
922	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]	MARK1	High confidence	236.741	245.547	1.0372
	t54 protein. [swissprot;acc:q92917]	GPKOW	Low confidence	204.822	199.81	1.02508
923	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]	LIN7B		207.877	202.795	1.02506
	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]	MARK2	High confidence	236.741	245.547	1.0372
924	interferon-related developmental regulator 2 (skmc15 protein). [swissprot;acc:q12894]	HYAL3	Low confidence	203.086	198.123	1.02505
	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	SPO11	High confidence	236.741	245.547	1.0372
925	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	PEF1		215.665	207.942	1.03714
	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	FARSA	Low confidence	201.128	196.213	1.02505
926	glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104]	GLUL		201.442	196.519
	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	IMMP2L	High confidence	217.942	210.139	1.03713
927	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	CUTL1	Low confidence	198.264	193.42	1.02504
	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	no value	High confidence	217.942	210.139	1.03713
928	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	MTRF1		225.976	218.017	1.03651
	transcription factor etv6 (ets-related protein tel1) (tel) (ets translocation variant 6). [swissprot;acc:p41212]	ETV6	Low confidence	205.137	200.128	1.02503
929	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	CUTL2		198.26	193.418
	mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352]	MPDU1	High confidence	225.955	218.015	1.03642
930	protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]	C19orf56	Low confidence	205.137	200.128	1.02503
	pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618]	PKM2	High confidence	231.357	239.778	1.0364
931	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]	BHLHB4		159.13	164.917	1.03637
	transcription factor tel-2 (ets-related protein tel2) (tel related ets factor). [swissprot;acc:q9y603]	ETV7	Low confidence	205.137	200.128	1.02503
932	fructose-1,6-bisphosphatase (ec 3.1.3.11) (d-fructose-1,6-bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:p09467]	FBP1		190.502	185.852	1.02502
	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]	MTRF1L	High confidence	225.939	218.013	1.03636
933	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	BHLHB5		159.165	164.951	1.03635
	dj842g6.2 (novel protein imilar to sel1l (sel-1 (suppressor of lin-12, c.elegans)-like)) (fragment). [sptrembl;acc:q9ugd3]	SEL1L2	Low confidence	190.447	185.802	1.025
934	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]	NOL6	High confidence	242.024	233.544	1.03631
	sel-1 homolog precursor (suppressor of lin-12-like protein) (sel-1l). [swissprot;acc:q9ubv2]	SEL1L	Low confidence	190.447	185.803	1.02499
935	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [swissprot;acc:q14197]	ICT1		200.801	195.908	1.02498
	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	no value	High confidence	232.473	224.372	1.03611
936	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]
	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	FBP2	Low confidence	190.386	185.747	1.02497
937	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	no value		194.236	189.504
	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	SF3A3	High confidence	220.246	212.618	1.03588
938	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	SNAP91	Low confidence	203.609	198.648	1.02497
	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	SF3A1	High confidence	220.246	212.618	1.03588
939	breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]	BRCA1		216.501	224.27
	delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629]	SGCD	Low confidence	206.817	201.78	1.02496
940	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632]	CAPNS1	High confidence	212.442	205.088	1.03586

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.