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

Results: HTML CSV LaTeX

Showing element 430 to 479 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
108	disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	DLGAP3	Divided	Low confidence	197.731	1.07251	212.069
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	HOMER3		High confidence	252.296	1.24902	201.995
	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]	SLC39A6	Subtracted		209.299	39.888	249.187
109	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	CREG1		Low confidence	197.762	14.251	212.013
	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]	GAD2		High confidence	209.299	39.888	249.187
	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	GNB4	Divided		266.933	1.24856	333.281
	neuralized-like. [refseq;acc:nm_004210]	NEURL		Low confidence	232.704	1.07239	216.996
110	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2	Subtracted		197.763	14.248	212.011
	deltex 2. [refseq;acc:nm_020892]	DTX2	Divided	High confidence	333.144	1.2459	267.393
	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	no value		Low confidence	197.752	1.07221	212.031
	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747]	NAPG	Subtracted	High confidence	209.299	39.888	249.187
111	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	DTX1	Divided		332.925	1.24563	267.274
	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1	Subtracted	Low confidence	197.779	14.204	211.983
	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]	GAD1		High confidence	209.299	39.888	249.187
	vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1]	VPS33A	Divided	Low confidence	203.914	1.07217	190.189
112	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	CREG1			197.762	1.07206	212.013
	disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	DLGAP4	Subtracted		197.779	14.204	211.983
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	POLE4		High confidence	275.754	39.846	235.908
	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	PBK	Divided		332.874	1.24557	267.246
113	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2		Low confidence	197.763	1.07205	212.011
	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	KHDRBS3		High confidence	332.874	1.24557	267.246
	natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281]	SLC11A2	Subtracted	Low confidence	224.763	14.197	210.566
	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	PPP2CA		High confidence	194.372	39.832	234.204
114	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	MRPS17		Low confidence	58	14	44
	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	B9D1		High confidence	229.818	37.447	267.265
	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1	Divided	Low confidence	197.779	1.07182	211.983
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1		High confidence	332.874	1.24557	267.246
115	disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	DLGAP4		Low confidence	197.779	1.07182	211.983
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	Subtracted	High confidence	277.546	37.085	240.461
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2	Divided		332.874	1.24557	267.246
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	SLC25A43	Subtracted	Low confidence	58	14	44
116	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	GNB3	Divided	High confidence	268.565	1.24545	334.483
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	Subtracted		208.52	36.925	171.595
	testican-3 precursor. [swissprot;acc:q9bq16]	no value		Low confidence	220.395	13.994	234.389
	vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253]	VPS18	Divided		204.161	1.07008	190.791
117	coagulation factor xiii a chain precursor (ec 2.3.2.13) (protein- glutamine gamma-glutamyltransferase a chain) (transglutaminase a chain). [swissprot;acc:p00488]	F13A1			226.395	1.06935	211.713
	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	Subtracted	High confidence	208.588	36.81	171.778
	neuralized-like. [refseq;acc:nm_004210]	NEURL	Divided		332.326	1.24491	266.948
	striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166]	ABRA	Subtracted	Low confidence	225.495	13.966	211.529
118	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	NDUFA12	Divided	High confidence	284.753	1.24382	228.934
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	OSR1	Subtracted		274.027	36.237	237.79
	protein-glutamine gamma-glutamyltransferase k (ec 2.3.2.13) (transglutaminase k) (tgase k) (tgk) (tg(k)) (transglutaminase 1) (epidermal tgase). [swissprot;acc:p22735]	TGM1	Divided	Low confidence	226.395	1.06935	211.713
	testican-1 precursor (spock protein). [swissprot;acc:q08629]	SPOCK1	Subtracted		220.254	13.857	234.111
119	adiponectin receptor 2. [refseq;acc:nm_024551]	ADIPOR2		High confidence	281.582	35.211	246.371
	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	NDUFS4	Divided		318.982	1.23157	259.004
	natural resistance-associated macrophage protein 1 (nramp 1). [swissprot;acc:p49279]	SLC11A1		Low confidence	225.666	1.06897	211.107
	testican-2 precursor. [swissprot;acc:q92563]	SPOCK2	Subtracted		220.222	13.825	234.047
120	nanos (fragment). [sptrembl;acc:q8wy41]	no value			203.66	13.819	217.479
	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	TIA1		High confidence	227.199	34.484	192.715
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	KCND2	Divided		269.278	1.21699	327.709

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.