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

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Showing element 1 to 50 of 77072 in total

Filtered  : 0
Value Type  : Measured

Rank	green	description	Interaction Map	Network Comparison Type	network_comparison	red
1	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	High confidence	Divided	36400000	364
			Low confidence
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	High confidence	Subtracted	6325	85
			Low confidence
2	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		Divided	8900000	0.00001
	174	cab2. [refseq;acc:nm_033419]	High confidence		17400000
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]		Subtracted	6325	85
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Low confidence		4196.8	23818.1
3	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Divided	8900000	0.00001
	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	High confidence		10900000
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Low confidence	Subtracted	2393.82	5106.93
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	High confidence		4196.8	23818.1
4	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Low confidence	Divided	8900000	0.00001
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	High confidence
	4356	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]	Low confidence	Subtracted	2274	2082
	21730	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	High confidence		3026	18704
5	17.5166	jumonji protein. [swissprot;acc:q92833]	Low confidence	Divided	1751660	0.00001
	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	High confidence		8900000
	2740.13	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Low confidence	Subtracted	2254.84	485.286
	24446.3	histone h4. [swissprot;acc:p02304]	High confidence		2673.2	21773.1
6	0.00001	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Low confidence	Divided	1300000	13
	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	High confidence		8900000	0.00001
	8836.85	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	Low confidence	Subtracted	1244.48	7592.37
	15605.1		High confidence		2430.4	13174.7
7	0.00001	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	Low confidence	Divided	231962	2.31962
	43	sedlin. [swissprot;acc:o14582]	High confidence		4300000	0.00001
	5898.71	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Low confidence	Subtracted	1238.62	4660.09
	15605.1	zinc finger protein 277. [swissprot;acc:q9nrm2]	High confidence		2430.4	13174.7
8	43	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]		Divided	4300000	0.00001
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Low confidence		75.4118	85
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	High confidence	Subtracted	2393.82	5106.93
	8770.72	zinc finger protein 277. [swissprot;acc:q9nrm2]	Low confidence		1232.83	7537.89
9	10.6048	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]		Divided	36.1876	383.762
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	High confidence		75.4118	85
	11468.3	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	Low confidence	Subtracted	1212.6	10255.7
	14756		High confidence		2278	12478
10	5.56738	serpin b12. [swissprot;acc:q96p63]	Low confidence	Divided	35.8425	199.549
	2804	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]		Subtracted	1211	1593
	6193.07	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	High confidence		1637.55	7830.62
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]		Divided	75.4118	85
11	5.56738	serpin b12. [swissprot;acc:q96p63]			35.8425	199.549
	5.71669	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	Low confidence		34.8539	199.249
	5341.81	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]		Subtracted	1111.45	4230.36
	7252.02	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	High confidence		1517.74	5734.28
12	5.71669	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]		Divided	34.8539	199.249
	58	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Low confidence		14.8103	859
	7099.51	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	High confidence	Subtracted	1469.89	5629.62
	30022.4	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	Low confidence		1099.6	31122
13	47	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	High confidence	Divided	29	1363
				Subtracted	1316

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.