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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 29840 in total

Interaction Map  : High confidence

Rank	green	Value Type	Network Comparison Type	network_comparison	description	red	Filtered
1	0.00001	Measured	Divided	36400000	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	364	0
		Rooted		1907880		19.0788
	7.16592	Squared		716592	cab2. [refseq;acc:nm_033419]	0.00001
	24	Ranked		2.4	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	10	1
	48.9336	Rooted		2.30547	rad50-interacting protein 1. [refseq;acc:nm_021930]	21.225
			Subtracted	27.7086
	60.0707			50.8706	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	9.20014	0
	322	Ranked		107	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	215	1
	1357.07	Squared	Divided	28.2513	rad50-interacting protein 1. [refseq;acc:nm_021930]	48.0356
	2394.5	Measured		5.31521		450.5
	6410		Subtracted	6325	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	0
	15915	Ranked	Divided	3.70633	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	4294
	21883		Subtracted	12977	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	8906
	33356.5	Measured		8126	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]	41482.5	1
	160184	Squared		72283	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	232467	0
	322755			145743	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	468498	1
2	0.00001		Divided	561325	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	5.61325	0
		Rooted		1240970		12.4097
	28	Ranked		1.86667	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]	15	1
	48.9336	Rooted		2.30547	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	21.225
			Subtracted	27.7086
	60.0707			50.8706	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	9.20014	0
	174	Measured	Divided	17400000	cab2. [refseq;acc:nm_033419]	0.00001
	322	Ranked	Subtracted	107	hbs1-like. [refseq;acc:nm_006620]	215	1
	1357.07	Squared	Divided	28.2513	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	48.0356
	2394.5	Measured		5.31521		450.5
	6410		Subtracted	6325	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	85	0
	14977	Ranked	Divided	2.55362	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	5865
	15915		Subtracted	11621	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	4294
	33356.5	Measured		8126	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	41482.5	1
	263351	Squared		143938	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]	407289
	345123			71500	histone h4. [swissprot;acc:p02304]	273623	0
3	0.00001		Divided	561325	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	5.61325
		Rooted		1240970		12.4097
	6.85565		Subtracted	30.0631	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	36.9188
	26.4292		Divided	1.92839	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	50.9657	1
			Subtracted	24.5365
	28	Ranked	Divided	1.86667	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	15
	109	Measured		10900000	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0.00001	0
	115.48	Squared		13.8285	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1596.92	1
	232	Ranked	Subtracted	105	rad50-interacting protein 1. [refseq;acc:nm_021930]	337
	698.5	Measured	Divided	3.71868	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	2597.5
	10950	Ranked	Subtracted	10916	cab2. [refseq;acc:nm_033419]	21866	0
	11083.9		Divided	2.47638	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	4475.84
	19621.3	Measured	Subtracted	4196.8	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	23818.1
	33356.5			8126	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	41482.5	1
	170628	Squared		35348	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	135280	0
	263351			143938	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	407289	1
4	2.81207		Divided	281207	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0.00001	0
	7.61577	Rooted	Subtracted	21.6929	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	29.3087

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.