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

Results: HTML CSV LaTeX

Showing element 401 to 450 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Value Type	red	green	network_comparison
51	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP	Divided	Squared	28994.2	17134.8	1.69212
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	CPEB3	Subtracted	Ranked	350	290	60
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	FIP1L1		Measured	23640.2	19479.8	4160.4
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	no value		Rooted	137.446	120.823	16.623
	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	HOXB4		Squared	173408	242989	69581
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2	Divided	Rooted	27.7254	44.0299	1.58807
	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	NEUROD4		Measured	779.167	1390.33	1.78438
	spermatogenesis associated 6. [refseq;acc:nm_019073]	SPATA6		Ranked	133	105	1.26667
52	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	AMPD2
	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	CHD5		Measured	779.167	1390.33	1.78438
	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	CPSF3	Subtracted		23422.4	19380.3	4042.1
	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	HOXC5		Squared	173408	242989	69581
	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	MAGEA6		Rooted	137.446	120.823	16.623
	neuralized-like. [refseq;acc:nm_004210]	NEURL	Divided		27.9107	44.1656	1.58239
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24		Squared	28994.2	17134.8	1.69212
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	RASAL2	Subtracted	Ranked	350	290	60
53	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	CDK2AP1	Divided	Measured	779.167	1390.33	1.78438
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	no value	Subtracted	Squared	173408	242989	69581
	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	Rooted	30.8986	46.4619	1.50369
			Subtracted	Ranked	318.982	259.004	59.978
	necdin. [swissprot;acc:q99608]	NDN		Rooted	137.446	120.823	16.623
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	PAPOLA		Measured	23326.5	19296.4	4030.1
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A	Divided	Squared	28994.2	17134.8	1.69212
	transcription factor jun-b. [swissprot;acc:p17275]	JUNB		Ranked	201.144	158.868	1.26611
54	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	GBE1	Subtracted		185.678	245.247	59.569
	deltex 2. [refseq;acc:nm_020892]	DTX2	Divided	Measured	1618.84	2651.88	1.63814
	exocyst complex component sec5. [swissprot;acc:q96kp1]	EXOC2	Subtracted		23316	19288.8	4027.2
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	HOXD4		Squared	173408	242989	69581
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	MAGED4	Divided		219048	129762	1.68808
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	MAGED1	Subtracted	Rooted	137.446	120.823	16.623
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	UFC1	Divided		40.0958	58.7986	1.46645
	transcription factor jun-d. [swissprot;acc:p17535]	JUND		Ranked	200.941	158.941	1.26425
55	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	DTX1		Measured	1629.21	2662.12	1.63399
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	PYGB	Subtracted	Ranked	185.678	245.247	59.569
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	MAGEE2	Divided	Squared	219048	129762	1.68808
	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	HOXB5	Subtracted		173408	242989	69581
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	MAGEF1		Rooted	137.446	120.823	16.623
	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	PAPOLG		Measured	23303.1	19279.5	4023.6
	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	Rooted	41.6734	28.9323	1.44038
	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	PRKRAP1		Ranked	320.927	254.434	1.26134
56	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	CTH		Rooted	41.6851	28.9509	1.43986
	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	PYGL	Subtracted	Ranked	185.678	245.247	59.569
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	no value	Divided		266.856	336.233	1.25998
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	HOXA5	Subtracted	Squared	173408	242989	69581
	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	MAGEB6B		Rooted	137.446	120.823	16.623
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	no value	Divided	Squared	219048	129762	1.68808
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	RRAGA	Subtracted	Measured	20911	24908.5	3997.5
	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		1631.67	2664.55	1.63302
57	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	GNG12		Ranked	266.856	336.233	1.25998
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	no value	Subtracted	Squared	173408	242989	69581

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.