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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Filtered  : 0
Value Type  : Measured

Rank	green	description	Network Comparison Type	network_comparison	Interaction Map	red
1	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Divided	36400000	High confidence	364
					Low confidence
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Subtracted	6325	High confidence	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]		17400000	High confidence
	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]		4196.8	Low confidence	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]		10900000	High confidence
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Subtracted	2393.82	Low confidence	5106.93
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		4196.8	High confidence	23818.1
4	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Divided	8900000	Low confidence	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]	Subtracted	2274	Low confidence	2082
	21730	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]		3026	High confidence	18704
5	17.5166	jumonji protein. [swissprot;acc:q92833]	Divided	1751660	Low confidence	0.00001
	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		8900000	High confidence
	2740.13	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	Subtracted	2254.84	Low confidence	485.286
	24446.3	histone h4. [swissprot;acc:p02304]		2673.2	High confidence	21773.1
6	0.00001	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Divided	1300000	Low confidence	13
	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		8900000	High confidence	0.00001
	8836.85	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	Subtracted	1244.48	Low confidence	7592.37
	15605.1			2430.4	High confidence	13174.7
7	0.00001	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]	Divided	231962	Low confidence	2.31962
	43	sedlin. [swissprot;acc:o14582]		4300000	High confidence	0.00001
	5898.71	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	1238.62	Low confidence	4660.09
	15605.1	zinc finger protein 277. [swissprot;acc:q9nrm2]		2430.4	High confidence	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]		75.4118	Low confidence	85
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Subtracted	2393.82	High confidence	5106.93
	8770.72	zinc finger protein 277. [swissprot;acc:q9nrm2]		1232.83	Low confidence	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]		75.4118	High confidence	85
	11468.3	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	Subtracted	1212.6	Low confidence	10255.7
	14756			2278	High confidence	12478
10	5.56738	serpin b12. [swissprot;acc:q96p63]	Divided	35.8425	Low confidence	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]		1637.55	High confidence	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]		34.8539	Low confidence	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]		1517.74	High confidence	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]		14.8103	Low confidence	859
	7099.51	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Subtracted	1469.89	High confidence	5629.62
	30022.4	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]		1099.6	Low confidence	31122
13	47	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Divided	29	High confidence	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.