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 932 to 981 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
466	PRPF31	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	Subtracted	225.661	209.651	16.01
467	ADCY5	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	Divided	248.152	267.226	1.07686
	DDX31	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779]	Subtracted	248.56	232.579	15.981
468	LRRC15	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	Divided	248.152	267.226	1.07686
	POLR2L	dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [swissprot;acc:p52436]	Subtracted	237.627	253.604	15.977
469	FEM1B	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	Divided	248.152	267.226	1.07686
	KCNA2	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	Subtracted	226.789	210.818	15.971
470	ING1	inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537]		224.535	240.476	15.941
	LRRC3	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	Divided	248.152	267.226	1.07686
471	LAMC1	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]
	ZNF622	zinc finger-like protein 9. [refseq;acc:nm_033414]	Subtracted	250.942	235.004	15.938
472	SLC45A2	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9]
	SLC46A2	thymic stromal co-transporter. [refseq;acc:nm_033051]	Divided	248.152	267.226	1.07686
473	no value	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915]	Subtracted	250.942	235.004	15.938
	PRPF31	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	Divided	225.661	209.651	1.07637
474	KCNA1	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	Subtracted	226.727	210.816	15.911
	KCNA2	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	Divided	226.789	210.818	1.07576
475	KCNA1	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]		226.727	210.816	1.07547
	MEMO1P	protein cgi-27 (c21orf19-like protein). [swissprot;acc:q9y316]	Subtracted	236.964	252.86	15.896
476	KCNA4	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	Divided	226.681	210.814	1.07527
			Subtracted			15.867
477	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]		220.183	236.015	15.832
	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	Divided	251.926	234.547	1.0741
478	BRF1	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]		228.051	212.321	1.07409
	PAK2	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	Subtracted	220.171	235.979	15.808
479	COG5	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]		220.172	235.98
	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Divided	228.051	212.321	1.07409
480	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]		237.109	254.667	1.07405
	PAK1	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	Subtracted	220.172	235.98	15.808
481	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Divided	237.109	254.667	1.07405
	PAK3	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	Subtracted	220.171	235.979	15.808
482	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]		220.161	235.95	15.789
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Divided	237.109	254.667	1.07405
483	BRF1	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	Subtracted	228.051	212.321	15.73
	RUNX2	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	Divided	237.109	254.667	1.07405
484	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]
	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Subtracted	228.051	212.321	15.73
485	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]		231.276	215.627	15.649
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Divided	237.109	254.667	1.07405
486	EIF6	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	Subtracted	248.866	233.287	15.579
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	Divided	226.313	243.03	1.07387
487	MDH2	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	Subtracted	238.529	254.099	15.57
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	Divided	226.313	243.03	1.07387
488	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	Subtracted	82.5916	98.0548	15.4632
	SART1	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Divided	225.026	209.798	1.07258
489	ATG3	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Subtracted	82.5916	98.0548	15.4632
	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	Divided	231.276	215.627	1.07257
490	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]		220.183	236.015	1.0719
	SSB	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Subtracted	242.531	227.136	15.395
491	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Divided	251.83	234.951	1.07184

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.