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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 29840 in total

Interaction Map  : High confidence

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

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.