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

Results: HTML CSV LaTeX

Showing element 2375 to 2424 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	Value Type	description	red	green	network_comparison
594	CDC40	Ranked	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	223.282	210.136	1.06256
	KPNA1	Squared	importin alpha-1 subunit (karyopherin alpha-1 subunit) (srp1-beta) (rag cohort protein 2) (nucleoprotein interactor 1) (npi-1). [swissprot;acc:p52294]	23517.1	27867.3	1.18498
595	no value	Measured	histone h2b. [refseq;acc:nm_175055]	3946.32	4475.47	1.13409
	FBL	Rooted	fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087]	51.2427	55.468	1.08246
	PRKAA2	Squared	5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646]	34129.7	40434.8	1.18474
	VAV1	Ranked	vav proto-oncogene. [swissprot;acc:p15498]	212.2	199.849	1.0618
596	no value	Measured	histone h2b.s (h2b/s). [swissprot;acc:p57053]	3946.32	4475.47	1.13409
		Rooted	cbf1 interacting corepressor. [refseq;acc:nm_004882]	60.0587	65.0057	1.08237
	PRKAG1	Squared	5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619]	34129.6	40434.5	1.18473
	VAV3	Ranked	vav-3 protein. [swissprot;acc:q9ukw4]	212.253	199.908	1.06175
597	no value	Measured	histone h2b.d (h2b/d). [swissprot;acc:q99877]	3946.32	4475.47	1.13409
	GPATCH1	Rooted	evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]	60.0587	65.0057	1.08237
	PRKAA1	Squared	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]	34129.4	40434.2	1.18473
	VAV2	Ranked	vav-2 protein. [swissprot;acc:p52735]	212.526	200.212	1.0615
598	AKT1		rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]	248.463	234.095	1.06138
	HIST3H3	Measured	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	3946.32	4475.47	1.13409
	MARS	Rooted	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	61.2527	66.2644	1.08182
	PRKAB2	Squared	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]	34129.6	40434.5	1.18473
599	AKT3	Ranked	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [swissprot;acc:q9y243]	248.463	234.095	1.06138
	CPSF4	Rooted	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	138.375	127.926	1.08168
	HIST1H2BA	Measured	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610]	3946.32	4475.47	1.13409
	PRKAG3	Squared	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	34129.6	40434.5	1.18473
600	no value	Measured	histone h2b.e (h2b/e). [swissprot;acc:q99879]	3946.32	4475.47	1.13409
	AKT2	Ranked	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [swissprot;acc:p31751]	248.463	234.095	1.06138
	KIAA1012	Rooted	trs85 homolog. [swissprot;acc:q9y2l5]	138.375	127.926	1.08168
	PRKAB1	Squared	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	34129.6	40434.5	1.18473
601	PRKAG2		5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]
	SYMPK	Measured	symplekin. [swissprot;acc:q92797]	15213.4	13418.1	1.1338
	VPS39	Ranked	vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1]	206.274	218.792	1.06069
	WDR33	Rooted	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	138.032	127.651	1.08132
602	ATXN2L	Measured	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]	4864.66	5514.87	1.13366
	CPSF1	Rooted	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	138.032	127.651	1.08132
	MAP4	Ranked	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]	206.274	218.792	1.06069
	TXNL4A	Squared	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	19129.8	22652.9	1.18417
603	no value	Measured	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	4864.66	5514.87	1.13366
		Squared	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	34071.5	40336.5	1.18388
		Rooted	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	60.0742	64.9418	1.08103
	LEF1	Ranked	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	225.829	212.945	1.0605
604	no value	Squared	alpha-nac protein. [sptrembl;acc:q9h009]	34069.4	40333	1.18385
	RPL15	Ranked	60s ribosomal protein l15. [swissprot;acc:p39030]	217.862	230.978	1.0602
	SLU7	Rooted	step ii splicing factor slu7. [refseq;acc:nm_006425]	60.0742	64.9418	1.08103
	VCL	Measured	vinculin (metavinculin). [swissprot;acc:p18206]	5958.23	6743.37	1.13177
605	ATP2C2		probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]	6143.52	6950.75	1.1314
	DIRAS1	Squared	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	34068.1	40330.8	1.18383
	HIST1H2BL	Ranked	histone h2b.c (h2b/c). [swissprot;acc:q99880]	247.47	233.441	1.0601
	ZNF547	Rooted	sedlin. [swissprot;acc:o14582]	116.061	125.434	1.08076
606	no value		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
	ATP2C1	Measured	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194]	6148.94	6955.76	1.13121
	DIRAS2	Squared	di-ras2. [refseq;acc:nm_017594]	34068	40330.7	1.18383
	HIST2H2BA	Ranked	histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778]	247.47	233.441	1.0601

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.