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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	Value Type	Filtered	network_comparison	red	green
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	Ranked	0	3.70633	4294	15915
	cab2. [refseq;acc:nm_033419]	Squared		716592	0.00001	7.16592
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Measured		36400000	364	0.00001
		Rooted		1907880	19.0788
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Ranked	1	2.4	10	24
	rad50-interacting protein 1. [refseq;acc:nm_021930]	Measured		5.31521	450.5	2394.5
		Squared		28.2513	48.0356	1357.07
		Rooted		2.30547	21.225	48.9336
2	cab2. [refseq;acc:nm_033419]	Measured	0	17400000	0.00001	174
	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	1	1.86667	15	28
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]		0	2.55362	5865	14977
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	Squared		561325	5.61325	0.00001
		Rooted		1240970	12.4097
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Measured	1	5.31521	450.5	2394.5
		Squared		28.2513	48.0356	1357.07
		Rooted		2.30547	21.225	48.9336
3	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Ranked		1.86667	15	28
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Measured		3.71868	2597.5	698.5
		Squared		13.8285	1596.92	115.48
		Rooted		1.92839	50.9657	26.4292
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	Ranked	0	2.47638	4475.84	11083.9
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Measured		10900000	0.00001	109
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	Squared		561325	5.61325	0.00001
		Rooted		1240970	12.4097
4	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Ranked	1	1.86667	15	28
	hbs1-like. [refseq;acc:nm_006620]	Measured		3.71868	2597.5	698.5
		Squared		13.8285	1596.92	115.48
		Rooted		1.92839	50.9657	26.4292
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Measured	0	8900000	0.00001	89
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	Ranked		2.45711	8906	21883
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Squared		281207	0.00001	2.81207
		Rooted		1044030		10.4403
5	cytohesin 4. [swissprot;acc:q9uia0]	Ranked	1	1.86667	15	28
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared	0	187479	0.00001	1.87479
		Rooted		943398		9.43398
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Measured		8900000		89
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]		1	3.39764	1153.5	339.5
		Squared		11.544	314.926	27.2805
		Rooted		1.84327	33.9632	18.4255
	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	Ranked	0	2.17144	5510.5	11965.7
6	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		1	1.86667	15	28
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Measured	0	8900000	0.00001	89
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared		187479		1.87479
		Rooted		943398		9.43398
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Measured	1	3.39764	1153.5	339.5
		Squared		11.544	314.926	27.2805
		Rooted		1.84327	33.9632	18.4255
	ubiquitin protein ligase. [refseq;acc:nm_130466]	Ranked	0	2.03897	7523	15339.2
7	cab2. [refseq;acc:nm_033419]			1.99689	21866	10950
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		1	1.49767	215	322

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.