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.

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 29840 in total

Interaction Map  : High confidence

Rank	Value Type	Network Comparison Type	Filtered	description	red	green	network_comparison
1	Measured	Divided	0	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	364	0.00001	36400000
			1	rad50-interacting protein 1. [refseq;acc:nm_021930]	450.5	2394.5	5.31521
		Subtracted	0	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	6410	6325
			1	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	33356.5	8126
	Ranked	Divided	0	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	4294	15915	3.70633
			1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	10	24	2.4
		Subtracted	0	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	8906	21883	12977
			1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	215	322	107
	Squared	Divided	0	cab2. [refseq;acc:nm_033419]	0.00001	7.16592	716592
			1	rad50-interacting protein 1. [refseq;acc:nm_021930]	48.0356	1357.07	28.2513
		Subtracted	0	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	232467	160184	72283
			1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	468498	322755	145743
	Rooted	Divided	0	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	19.0788	0.00001	1907880
			1	rad50-interacting protein 1. [refseq;acc:nm_021930]	21.225	48.9336	2.30547
		Subtracted	0	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	9.20014	60.0707	50.8706
			1	rad50-interacting protein 1. [refseq;acc:nm_021930]	21.225	48.9336	27.7086
2	Measured	Divided	0	cab2. [refseq;acc:nm_033419]	0.00001	174	17400000
			1	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	450.5	2394.5	5.31521
		Subtracted	0	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	85	6410	6325
			1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	41482.5	33356.5	8126
	Ranked	Divided	0	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	5865	14977	2.55362
			1	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	28	1.86667
		Subtracted	0	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	4294	15915	11621
			1	hbs1-like. [refseq;acc:nm_006620]	215	322	107
	Squared	Divided	0	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	5.61325	0.00001	561325
			1	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	48.0356	1357.07	28.2513
		Subtracted	0	histone h4. [swissprot;acc:p02304]	273623	345123	71500
			1	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	263351	143938
	Rooted	Divided	0	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	12.4097	0.00001	1240970
			1	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	21.225	48.9336	2.30547
		Subtracted	0	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	9.20014	60.0707	50.8706
			1	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	21.225	48.9336	27.7086
3	Measured	Divided	0	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0.00001	109	10900000
			1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	2597.5	698.5	3.71868
		Subtracted	0	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	23818.1	19621.3	4196.8
			1	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	41482.5	33356.5	8126
	Ranked	Divided	0	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	4475.84	11083.9	2.47638
			1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	15	28	1.86667
		Subtracted	0	cab2. [refseq;acc:nm_033419]	21866	10950	10916
			1	rad50-interacting protein 1. [refseq;acc:nm_021930]	337	232	105
	Squared	Divided	0	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	5.61325	0.00001	561325
			1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1596.92	115.48	13.8285
		Subtracted	0	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	135280	170628	35348
			1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	407289	263351	143938
	Rooted	Divided	0	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	12.4097	0.00001	1240970
			1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	50.9657	26.4292	1.92839
		Subtracted	0	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	36.9188	6.85565	30.0631
			1	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	50.9657	26.4292	24.5365
4	Measured	Divided	0	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0.00001	89	8900000
			1	hbs1-like. [refseq;acc:nm_006620]	2597.5	698.5	3.71868

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.