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	red	Filtered	green	network_comparison

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Showing element 3808 to 3857 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	green	network_comparison
952	vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487]	ATP6V0A2	Divided	Low confidence	190.738	186.118	1.02482
953	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	CLEC3A	Subtracted	High confidence	178.033	170.82	7.213
	ephrin type-b receptor 1 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-2) (net) (hek6) (elk). [swissprot;acc:p54762]	EPHB1		Low confidence	210.722	205.826	4.896
	heat shock factor binding protein 1. [swissprot;acc:o75506]	no value	Divided		206.826	201.818	1.02481
	polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780]	EXOSC10		High confidence	198.494	205.466	1.03512
954	ephrin type-a receptor 5 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-1) (eph homology kinase-1) (receptor protein- tyrosine kinase hek7). [swissprot;acc:p54756]	EPHA5	Subtracted	Low confidence	210.722	205.826	4.896
	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	GSTZ1	Divided	High confidence	267.447	276.773	1.03487
	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	GLRX3	Subtracted		228.412	235.609	7.197
	vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488]	TCIRG1	Divided	Low confidence	190.801	186.183	1.0248
955	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	MAGI1	Subtracted	High confidence	221.73	228.906	7.176
	ephrin type-a receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eck) (epithelial cell kinase). [swissprot;acc:p29317]	EPHA2		Low confidence	210.722	205.826	4.896
	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	MRPL27	Divided	High confidence	231.163	239.205	1.03479
	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	WASL		Low confidence	198.172	193.377	1.0248
956	ephrin type-a receptor 7 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-3) (eph homology kinase-3) (receptor protein- tyrosine kinase hek11). [swissprot;acc:q15375]	EPHA7	Subtracted		210.722	205.826	4.896
	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]	DHX15	Divided		203.365	198.452	1.02476
	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	TCP1	Subtracted	High confidence	135.379	128.225	7.154
	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	SORBS3	Divided		211.812	204.732	1.03458
957	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398]	ARAF			129.913	134.399	1.03453
	ephrin type-b receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-3) (drt) (receptor protein-tyrosine kinase hek5) (erk). [swissprot;acc:p29323]	EPHB2	Subtracted	Low confidence	210.722	205.826	4.896
	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]	RGL1		High confidence	168.592	161.452	7.14
	transcription initiation factor tfiid 70 kda subunit (tafii-70) (tafii-80) (tafii80). [swissprot;acc:p49848]	TAF6	Divided	Low confidence	201.82	196.944	1.02476
958	ephrin type-a receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor sek) (receptor protein-tyrosine kinase hek8). [swissprot;acc:p54764]	EPHA4	Subtracted		210.722	205.826	4.896
	probable serine/threonine protein kinase snf1lk (ec 2.7.1.-). [swissprot;acc:p57059]	SNF1LK	Divided		194.842	190.136	1.02475
	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	RAF1		High confidence	129.921	134.406	1.03452
	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	HTRA2	Subtracted		218.459	211.338	7.121
959	ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760]	no value		Low confidence	210.722	205.826	4.896
	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]		Divided	High confidence	237.558	229.677	1.03431
	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	HTRA4	Subtracted		218.461	211.343	7.118
	single-stranded dna-binding protein, mitochondrial precursor (mt-ssb) (mtssb) (pwp1-interacting protein 17). [swissprot;acc:q04837]	SSBP1	Divided	Low confidence	194.842	190.136	1.02475
960	ephrin type-b receptor 6 precursor (tyrosine-protein kinase-defective receptor eph-6) (hep). [swissprot;acc:o15197]	EPHB6	Subtracted		210.722	205.826	4.896
	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	HTRA3		High confidence	218.462	211.345	7.117
	sodium/iodide cotransporter (na(+)/i(-) cotransporter) (sodium-iodide symporter) (na+/i-symporter). [swissprot;acc:q92911]	SLC5A5	Divided	Low confidence	200.05	195.223	1.02473
	zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543]	ZRF1		High confidence	237.558	229.677	1.03431
961	ephrin type-a receptor 8 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eek) (eph-and elk-related kinase) (hek3). [swissprot;acc:p29322]	EPHA8	Subtracted	Low confidence	210.722	205.826	4.896
	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492]	PICALM	Divided		203.548	198.638	1.02472
	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	HTRA1	Subtracted	High confidence	218.468	211.357	7.111
	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	PPP2R5E	Divided		130.066	134.527	1.0343
962	cyclin g2. [swissprot;acc:q16589]	CCNG2
	ephrin type-a receptor 3 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor etk1) (hek) (hek4). [swissprot;acc:p29320]	EPHA3	Subtracted	Low confidence	210.722	205.826	4.896
	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	MAD2L2		High confidence	219.656	212.547	7.109
	polymerase (dna directed), eta. [refseq;acc:nm_006502]	POLH	Divided	Low confidence	201.09	196.241	1.02471
963	cyclin g1 (cyclin g). [swissprot;acc:p51959]	CCNG1		High confidence	130.066	134.527	1.0343
	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [swissprot;acc:q14197]	ICT1	Subtracted	Low confidence	200.801	195.908	4.893
	integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287]	ITM2B	Divided		201.992	197.121	1.02471
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	no value	Subtracted	High confidence	219.656	212.547	7.109
964	integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7]	ITM2C	Divided	Low confidence	201.992	197.121	1.02471
	kinesin family member c3. [refseq;acc:nm_005550]	KIFC3	Subtracted		205.25	200.362	4.888
	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]	NUP88		High confidence	219.656	212.547	7.109
	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	PPP2R5A	Divided		130.066	134.527	1.0343
965	integral membrane protein 2a (e25 protein). [swissprot;acc:o43736]	ITM2A		Low confidence	201.992	197.121	1.02471

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.