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

Results: HTML CSV LaTeX

Showing element 25726 to 25775 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	Value Type	Hugo	description	Interaction Map	network_comparison	red	green
3216	Squared	PDCD11	rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690]	Low confidence	1.03437	45430.7	43921
	Rooted	ERCC1	dna excision repair protein ercc-1. [swissprot;acc:p07992]	High confidence	1	0.00001	0.00001
		SNTA1	alpha-1-syntrophin (59 kda dystrophin-associated protein a1, acidic component 1) (pro-tgf-alpha cytoplasmic domain-interacting protein 1) (tacip1) (syntrophin 1). [swissprot;acc:q13424]	Low confidence	1.03141	71.6916	73.9433
3217	Measured	BTK	tyrosine-protein kinase btk (ec 2.7.1.112) (bruton's tyrosine kinase) (agammaglobulinaemia tyrosine kinase) (atk) (b cell progenitor kinase) (bpk). [swissprot;acc:q06187]		1.02725	7897.46	8112.69
		SCMH1	sex comb on midleg homolog 1. [refseq;acc:nm_012236]	High confidence	1	0.00001	0.00001
	Ranked
		SUMO1P3	ubiquitin-like protein smt3c precursor (ubiquitin-homology domain protein pic1) (ubiquitin-like protein ubl1) (ubiquitin-related protein sumo-1) (gap modifying protein 1) (gmp1) (sentrin). [swissprot;acc:q93068]	Low confidence	1.01598	200.841	197.682
	Squared	HSP90AA2	heat shock protein hsp 90-alpha (hsp 86). [swissprot;acc:p07900]		1.03436	45675.9	44158.5
		SCMH1	sex comb on midleg homolog 1. [refseq;acc:nm_012236]	High confidence	1	0.00001	0.00001
	Rooted
		ZNF207	zinc finger protein 207. [swissprot;acc:o43670]	Low confidence	1.03141	72.0362	74.2988
3218	Measured	GADD45A	growth arrest and dna-damage-inducible protein gadd45 alpha (dna- damage inducible transcript 1) (ddit1). [swissprot;acc:p24522]		1.02724	7868.33	8082.66
		MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	High confidence	1	0.00001	0.00001
	Ranked
		UGDH	udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [swissprot;acc:o60701]	Low confidence	1.01598	200.841	197.682
	Squared	MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	High confidence	1	0.00001	0.00001
		PCYT2	ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447]	Low confidence	1.03435	44860.8	43370.8
	Rooted	DTNB	dystrobrevin beta (beta-dystrobrevin) (dtn-b). [swissprot;acc:o60941]		1.0314	71.6917	73.9429
		MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	High confidence	1	0.00001	0.00001
3219	Measured	GADD45B	growth arrest and dna-damage-inducible protein gadd45 beta (negative growth-regulatory protein myd118) (myeloid differentiation primary response protein myd118). [swissprot;acc:o75293]	Low confidence	1.02724	7868.29	8082.61
		VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	High confidence	1	0.00001	0.00001
	Ranked	TES	testin (tess). [swissprot;acc:q9ugi8]	Low confidence	1.01597	200.581	197.428
		VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	High confidence	1	0.00001	0.00001
	Squared	NDUFS6	nadh-ubiquinone oxidoreductase 13 kda-a subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-a) (ci-13kd-a). [swissprot;acc:o75380]	Low confidence	1.03435	44860.8	43370.8
		VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	High confidence	1	0.00001	0.00001
	Rooted	BBX	hmg-box transcription factor bbx; x 001 protein. [refseq;acc:nm_020235]	Low confidence	1.03139	72.236	74.5032
		VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	High confidence	1	0.00001	0.00001
3220	Measured	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	Low confidence	1.02723	7787.3	7999.35
		TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	High confidence	1	0.00001	0.00001
	Ranked	no value	60s ribosomal protein l39. [swissprot;acc:p02404]	Low confidence	1.01596	202.665	199.481
		TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	High confidence	1	0.00001	0.00001
	Squared	no value	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Low confidence	1.03435	45247	43744.5
		TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	High confidence	1	0.00001	0.00001
	Rooted	HOXC8	homeobox protein hox-c8 (hox-3a). [swissprot;acc:p31273]	Low confidence	1.03139	71.4939	73.7382
		TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	High confidence	1	0.00001	0.00001
3221	Measured	GAPDH	glyceraldehyde 3-phosphate dehydrogenase, liver (ec 1.2.1.12) (gapdh). [swissprot;acc:p04406]	Low confidence	1.02723	8049.1	8268.25
		PAFAH1B1	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]	High confidence	1	0.00001	0.00001
	Ranked	HCCS	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	Low confidence	1.01596	200.125	196.981
		PAFAH1B1	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]	High confidence	1	0.00001	0.00001
	Squared	LDB3	zasp protein (fragment). [sptrembl;acc:q9y4z3]	Low confidence	1.03435	44149.9	42683.9
		PAFAH1B1	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]	High confidence	1	0.00001	0.00001
	Rooted
		TLE3	transducin-like enhancer protein 3 (esg3). [swissprot;acc:q04726]	Low confidence	1.03138	70.971	73.1984
3222	Measured	ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	High confidence	1	0.00001	0.00001
		TLE3	transducin-like enhancer protein 3 (esg3). [swissprot;acc:q04726]	Low confidence	1.02721	7829.65	8042.67
	Ranked	no value	serine/threonine kinase 38 like. [refseq;acc:nm_015000]		1.01595	200.25	197.107
		ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	High confidence	1	0.00001	0.00001
	Squared	no value	ubiquitin. [swissprot;acc:p02248]	Low confidence	1.03435	44987.3	43493.5
		ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	High confidence	1	0.00001	0.00001
	Rooted

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.