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

Results: HTML CSV LaTeX

Showing element 458 to 507 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	Value Type	red	Interaction Map	green	network_comparison
58	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	GNG4	Ranked	266.863	High confidence	336.191	1.25979
	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	HOXC5	Measured	15464.1	Low confidence	17572.7	1.13635
	jun dimerization protein. [refseq;acc:nm_130469]	no value	Ranked	202.802		182.73	1.10985
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1	Measured	1631.67	High confidence	2664.55	1.63302
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	MAGEA2B	Squared	219048		129762	1.68808
	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	Rooted	59.0909	Low confidence	66.1317	1.11915
	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1		41.6969	High confidence	28.9696	1.43933
59	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	no value		75.6323	Low confidence	67.6572	1.11788
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	GNG3	Ranked	266.863	High confidence	336.19	1.25978
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	no value	Squared	219048		129762	1.68808
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Measured	15464.1	Low confidence	17572.7	1.13635
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2		1631.67	High confidence	2664.55	1.63302
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	no value	Squared	92930	Low confidence	71802.1	1.29425
	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	Ranked	233.134		210.267	1.10875
			Rooted	37.2205	High confidence	52.2064	1.40262
60	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	GBE1	Measured	4489.19		2765.82	1.6231
	cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238]	no value	Rooted	59.2532	Low confidence	66.0541	1.11478
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	PSCD2	Squared	92930.5		71802.4	1.29425
	fos-related antigen 2. [swissprot;acc:p15408]	FOSL2	Ranked	202.793		182.961	1.10839
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	GNG8		266.864	High confidence	336.184	1.25976
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	HOXD4	Measured	15464.1	Low confidence	17572.7	1.13635
	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	MAGEA6	Squared	219048	High confidence	129762	1.68808
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	SON	Rooted	35.6294		49.8119	1.39806
61	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	PSCD3	Squared	92920.4	Low confidence	71796.4	1.29422
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	PYGB	Measured	4489.19	High confidence	2765.82	1.6231
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	GNG5	Ranked	266.864		336.182	1.25975
	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	HOXB5	Measured	15464.1	Low confidence	17572.7	1.13635
	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	KCNIP1	Rooted	43.4291	High confidence	31.7159	1.36932
	necdin. [swissprot;acc:q99608]	NDN	Squared	219048		129762	1.68808
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	FOSB	Ranked	202.792	Low confidence	182.974	1.10831
	set and mynd domain containing 2; hskm-b protein; zinc finger, mynd domain containing 14. [refseq;acc:nm_020197]	SMYD2	Rooted	59.2532		66.0541	1.11478
62	cytohesin 4. [swissprot;acc:q9uia0]	PSCD4	Squared	92262.9		71400.2	1.29219
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	FOSL1	Ranked	202.79		183.017	1.10804
	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	PYGL	Measured	4489.19	High confidence	2765.82	1.6231
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	GNG10	Ranked	266.865		336.181	1.25974
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	HOXA5	Measured	15464.1	Low confidence	17572.7	1.13635
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	MAGED1	Squared	219048	High confidence	129762	1.68808
	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	KCNIP4	Rooted	43.4519		31.7522	1.36847
	set and mynd domain containing protein 1. [sptrembl;acc:q8nb12]	SMYD1		59.2532	Low confidence	66.0541	1.11478
63	core1 udp-galactose:n-acetylgalactosamine-alpha-r beta 1,3-galac. [refseq;acc:nm_020156]	C1GALT1	Squared	73677.6		57498.7	1.28138
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	no value	Ranked	266.865	High confidence	336.178	1.25973
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		Measured	15464.1	Low confidence	17572.7	1.13635
	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	KCNIP2	Rooted	43.4554	High confidence	31.7576	1.36835
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	MAGEF1	Squared	219048		129762	1.68808
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	MYO15A	Measured	4489.19		2765.82	1.6231
	putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580]	RBM7	Ranked	265.688	Low confidence	239.902	1.10749
	t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806]	TBX19	Rooted	61.4851		68.1264	1.10801
64	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	GBE1		63.8686	High confidence	47.2654	1.35128
	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	PYGM	Measured	4489.19		2765.82	1.6231
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	GNG11	Ranked	266.868		336.159	1.25965

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.