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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Value Type	red	network_comparison	green
57	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	KHDRBS3	Divided	Measured	1631.67	1.63302	2664.55
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	MAGEA11		Squared	219048	1.68808	129762
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	no value	Subtracted	Rooted	137.446	16.623	120.823
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	MYO15A		Ranked	185.678	59.569	245.247
	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]	KCND3	Divided	Rooted	41.6879	1.43973	28.9554
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	RRAGC	Subtracted	Measured	20911	3997.5	24908.5
58	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	PYGM		Ranked	185.678	59.569	245.247
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	GNG4	Divided		266.863	1.25979	336.191
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1		Measured	1631.67	1.63302	2664.55
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	MAGEA2B		Squared	219048	1.68808	129762
	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	MAGEA9	Subtracted	Rooted	137.446	16.623	120.823
	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1	Divided		41.6969	1.43933	28.9696
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	RRAGB	Subtracted	Measured	20911	3997.5	24908.5
	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	HSD17B14		Squared	173408	69581	242989
59	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	ANLN		Measured	20911	3997.5	24908.5
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	GNG3	Divided	Ranked	266.863	1.25978	336.19
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	no value		Squared	219048	1.68808	129762
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2		Measured	1631.67	1.63302	2664.55
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	MAGEA8	Subtracted	Rooted	137.446	16.623	120.823
	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		37.2205	1.40262	52.2064
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	KCND2	Subtracted	Ranked	269.278	58.431	327.709
	serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873]	PPP1CC		Squared	199594	69573	130021
60	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	GBE1	Divided	Measured	4489.19	1.6231	2765.82
	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	CTH	Subtracted	Ranked	269.254	58.401	327.655
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	GNG8	Divided		266.864	1.25976	336.184
	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	MAGEA6		Squared	219048	1.68808	129762
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	MAGEC1	Subtracted	Rooted	137.446	16.623	120.823
	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	PPP1R2		Squared	192904	66737	126167
	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	Divided	Rooted	35.6294	1.39806	49.8119
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	no value	Subtracted	Measured	16771.5	3882.4	12889.1
61	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	ARRB2			6475.5	3832	10307.5
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	PYGB	Divided		4489.19	1.6231	2765.82
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	GNG5		Ranked	266.864	1.25975	336.182
	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	KCNIP1		Rooted	43.4291	1.36932	31.7159
	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	MAGEA4	Subtracted		137.446	16.623	120.823
	necdin. [swissprot;acc:q99608]	NDN	Divided	Squared	219048	1.68808	129762
	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]	KCND3	Subtracted	Ranked	269.248	58.394	327.642
	type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210]	PPP1R2P9		Squared	192779	66684	126095
62	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	ARRB1		Measured	6475.5	3832	10307.5
	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	PYGL	Divided		4489.19	1.6231	2765.82
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	GNG10		Ranked	266.865	1.25974	336.181
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	no value	Subtracted	Rooted	137.446	16.623	120.823
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	MAGED1	Divided	Squared	219048	1.68808	129762
	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	KCNIP4		Rooted	43.4519	1.36847	31.7522
	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1	Subtracted	Ranked	269.23	58.371	327.601
	ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050]	RRS1		Squared	189976	65496	124480
63	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	no value	Divided	Ranked	266.865	1.25973	336.178
	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	1.36835	31.7576
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	MAGEA10	Subtracted		137.446	16.623	120.823
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	MAGEF1	Divided	Squared	219048	1.68808	129762

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.