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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 401 to 450 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	Network Comparison Type	red	green	network_comparison
51	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Squared	Divided	28994.2	17134.8	1.69212
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Ranked	Subtracted	350	290	60
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Measured		23640.2	19479.8	4160.4
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Rooted		137.446	120.823	16.623
	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Squared		173408	242989	69581
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Rooted	Divided	27.7254	44.0299	1.58807
	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Measured		779.167	1390.33	1.78438
	spermatogenesis associated 6. [refseq;acc:nm_019073]	Ranked		133	105	1.26667
52	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	Measured		779.167	1390.33	1.78438
	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]		Subtracted	23422.4	19380.3	4042.1
	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Squared		173408	242989	69581
	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Rooted		137.446	120.823	16.623
	neuralized-like. [refseq;acc:nm_004210]		Divided	27.9107	44.1656	1.58239
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Squared		28994.2	17134.8	1.69212
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Ranked	Subtracted	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]	Measured	Divided	779.167	1390.33	1.78438
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared	Subtracted	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]	Ranked		318.982	259.004	59.978
		Rooted	Divided	30.8986	46.4619	1.50369
	necdin. [swissprot;acc:q99608]		Subtracted	137.446	120.823	16.623
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Measured		23326.5	19296.4	4030.1
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	Squared	Divided	28994.2	17134.8	1.69212
	transcription factor jun-b. [swissprot;acc:p17275]	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]		Subtracted	185.678	245.247	59.569
	deltex 2. [refseq;acc:nm_020892]	Measured	Divided	1618.84	2651.88	1.63814
	exocyst complex component sec5. [swissprot;acc:q96kp1]		Subtracted	23316	19288.8	4027.2
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Squared		173408	242989	69581
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]		Divided	219048	129762	1.68808
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Rooted	Subtracted	137.446	120.823	16.623
	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]		Divided	40.0958	58.7986	1.46645
	transcription factor jun-d. [swissprot;acc:p17535]	Ranked		200.941	158.941	1.26425
55	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Measured		1629.21	2662.12	1.63399
	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Ranked	Subtracted	185.678	245.247	59.569
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared	Divided	219048	129762	1.68808
	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]		Subtracted	173408	242989	69581
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	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]	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]	Rooted	Divided	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]	Ranked		320.927	254.434	1.26134
56	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	Rooted		41.6851	28.9509	1.43986
	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Ranked	Subtracted	185.678	245.247	59.569
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		Divided	266.856	336.233	1.25998
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Squared	Subtracted	173408	242989	69581
	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Rooted		137.446	120.823	16.623
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	Divided	219048	129762	1.68808
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Measured	Subtracted	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]		Divided	1631.67	2664.55	1.63302
57	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	Ranked		266.856	336.233	1.25998
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Squared	Subtracted	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
- 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.