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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Filtered  : 0
Value Type  : Measured

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

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.