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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 29840 in total

Interaction Map  : High confidence

Rank	description	Network Comparison Type	Value Type	Filtered	green	network_comparison	red
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Divided	Ranked	0	15915	3.70633	4294
	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	Subtracted	Measured		6410	6325	85
			Rooted		60.0707	50.8706	9.20014
	cab2. [refseq;acc:nm_033419]	Divided	Squared		7.16592	716592	0.00001
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Subtracted	Ranked	1	322	107	215
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]		Measured		33356.5	8126	41482.5
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Divided		0	0.00001	36400000	364
			Rooted			1907880	19.0788
		Subtracted	Ranked		21883	12977	8906
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		Squared		160184	72283	232467
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Divided	Ranked	1	24	2.4	10
		Subtracted	Squared		322755	145743	468498
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	Measured		2394.5	5.31521	450.5
			Squared		1357.07	28.2513	48.0356
			Rooted		48.9336	2.30547	21.225
		Subtracted				27.7086
2	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]		Ranked	0	15915	11621	4294
	cab2. [refseq;acc:nm_033419]	Divided	Measured		174	17400000	0.00001
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Subtracted		1	33356.5	8126	41482.5
	hbs1-like. [refseq;acc:nm_006620]		Ranked		322	107	215
	histone h4. [swissprot;acc:p02304]		Squared	0	345123	71500	273623
	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]		Measured		6410	6325	85
			Rooted		60.0707	50.8706	9.20014
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Divided	Ranked	1	28	1.86667	15
		Subtracted	Squared		263351	143938	407289
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Divided	Ranked	0	14977	2.55362	5865
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		Squared		0.00001	561325	5.61325
			Rooted			1240970	12.4097
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]		Measured	1	2394.5	5.31521	450.5
			Squared		1357.07	28.2513	48.0356
			Rooted		48.9336	2.30547	21.225
		Subtracted				27.7086
3	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]			0	6.85565	30.0631	36.9188
	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]		Squared		170628	35348	135280
	cab2. [refseq;acc:nm_033419]		Ranked		10950	10916	21866
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Divided		1	28	1.86667	15
		Subtracted	Squared		263351	143938	407289
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		Measured		33356.5	8126	41482.5
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided			698.5	3.71868	2597.5
			Squared		115.48	13.8285	1596.92
			Rooted		26.4292	1.92839	50.9657
		Subtracted				24.5365
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	Divided	Ranked	0	11083.9	2.47638	4475.84
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted	Measured		19621.3	4196.8	23818.1
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Divided			109	10900000	0.00001
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Subtracted	Ranked	1	232	105	337
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Divided	Squared	0	0.00001	561325	5.61325
			Rooted			1240970	12.4097
4	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		Ranked	1	28	1.86667	15
		Subtracted	Squared		263351	143938	407289

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.