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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 680 to 729 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Value Type	red	green	network_comparison
85	UNC84A	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Subtracted	Ranked	296.677	247.559	49.118
86	DGCR14	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]			335	286	49
	FOSB	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Divided	Measured	4942.49	7037.32	1.42384
	GNG5	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	Subtracted	Rooted	40.3361	24.295	16.0411
	KRAS	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116]	Divided	Squared	105500	64146.3	1.64468
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]		Ranked	88.2482	110.265	1.24949
	PPP1CA	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	Subtracted	Measured	21370.8	17896.5	3474.3
	PPP2R1A	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153]	Divided	Rooted	63.6205	48.8838	1.30146
	RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Subtracted	Squared	103496	146848	43352
87	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]
	APBA1	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	Divided	Rooted	42.2825	54.9687	1.30003
	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]		Measured	4944.3	7038.04	1.42347
	GNG10	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	Subtracted	Rooted	40.3362	24.2954	16.0408
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Divided	Ranked	88.2482	110.265	1.24949
	PCF11	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	Subtracted	Measured	20287.2	17083.8	3203.4
	RBM15B	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]		Ranked	249.663	298.263	48.6
	SHOC2	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [swissprot;acc:q9uq13]	Divided	Squared	105482	64136.9	1.64464
88	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	Subtracted	Rooted	40.3364	24.2968	16.0396
		hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Divided	Ranked	88.2482	110.265	1.24949
		ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211]		Squared	105482	64137.2	1.64463
		ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Subtracted		98517.9	56927.2	41590.7
	KCND2	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	Divided	Measured	2411.93	1695.45	1.42259
	KRAS	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116]	Subtracted		16074	12888.4	3185.6
	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Divided	Rooted	37.3005	48.4141	1.29795
	RGS19	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	Subtracted	Ranked	249.663	298.263	48.6
89	CTH	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	Divided	Measured	2414.22	1698.12	1.4217
	GNG11	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Subtracted	Rooted	40.3372	24.3043	16.0329
	HRAS	transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112]	Divided	Squared	105473	64132.3	1.64462
	KRAS	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [swissprot;acc:p01116]	Subtracted		105500	64146.3	41353.7
	MAGEA6	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Divided	Ranked	88.2482	110.265	1.24949
	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Subtracted		249.663	298.263	48.6
	SHOC2	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [swissprot;acc:q9uq13]		Measured	16071.6	12886.8	3184.8
	SKP1A	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	Divided	Rooted	37.3005	48.4141	1.29795
90	no value	ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211]	Subtracted	Measured	16071.6	12886.8	3184.8
		transforming protein n-ras. [swissprot;acc:p01111]	Divided	Squared	105469	64130.2	1.64461
	FBXW7	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]		Rooted	37.3005	48.4141	1.29795
	JUND	transcription factor jun-d. [swissprot;acc:p17535]	Subtracted		63.636	79.6225	15.9865
	KCND3	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	Divided	Measured	2414.77	1698.75	1.4215
	NDN	necdin. [swissprot;acc:q99608]		Ranked	88.2482	110.265	1.24949
	RGS20	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	Subtracted		249.663	298.263	48.6
	SHOC2	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [swissprot;acc:q9uq13]		Squared	105482	64136.9	41345.1
91	no value	ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [swissprot;acc:o15211]				64137.2	41344.8
	CUL2	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	Divided	Rooted	37.3005	48.4141	1.29795
	GNA11	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	Subtracted		40.2812	24.3678	15.9134
	HRAS	transforming protein p21/h-ras-1 (c-h-ras). [swissprot;acc:p01112]		Measured	16070.4	12886	3184.4
	KCND1	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	Divided		2416.53	1700.8	1.42082
	LBX1	transcription factor lbx1. [swissprot;acc:p52954]	Subtracted	Ranked	249.663	298.263	48.6
	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Divided		88.2482	110.265	1.24949
	RALGDS	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]		Squared	90432.9	56304.2	1.60615
92	no value	transforming protein n-ras. [swissprot;acc:p01111]	Subtracted	Measured	16069.8	12885.6	3184.2

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.