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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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	description	Interaction Map	Network Comparison Type	Filtered	network_comparison	red	green

Results: HTML CSV LaTeX

Showing element 1 to 50 of 14920 in total

Interaction Map  : High confidence
Network Comparison Type  : Divided

Rank	Value Type	description	Filtered	network_comparison	red	green
1	Measured	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	36400000	364	0.00001
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	5.31521	450.5	2394.5
	Ranked	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	3.70633	4294	15915
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1	2.4	10	24
	Squared	cab2. [refseq;acc:nm_033419]	0	716592	0.00001	7.16592
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	28.2513	48.0356	1357.07
	Rooted	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	1907880	19.0788	0.00001
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	2.30547	21.225	48.9336
2	Measured	cab2. [refseq;acc:nm_033419]	0	17400000	0.00001	174
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	5.31521	450.5	2394.5
	Ranked	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]		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
	Squared	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		561325	5.61325	0.00001
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	28.2513	48.0356	1357.07
	Rooted	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	0	1240970	12.4097	0.00001
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	2.30547	21.225	48.9336
3	Measured	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		3.71868	2597.5	698.5
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	10900000	0.00001	109
	Ranked	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	1	1.86667	15	28
		nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	0	2.47638	4475.84	11083.9
	Squared	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	13.8285	1596.92	115.48
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	561325	5.61325	0.00001
	Rooted	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	1.92839	50.9657	26.4292
		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	1240970	12.4097	0.00001
4	Measured	hbs1-like. [refseq;acc:nm_006620]	1	3.71868	2597.5	698.5
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	8900000	0.00001	89
	Ranked	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	1	1.86667	15	28
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	2.45711	8906	21883
	Squared	hbs1-like. [refseq;acc:nm_006620]	1	13.8285	1596.92	115.48
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	281207	0.00001	2.81207
	Rooted	hbs1-like. [refseq;acc:nm_006620]	1	1.92839	50.9657	26.4292
		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0	1044030	0.00001	10.4403
5	Measured	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		8900000		89
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	3.39764	1153.5	339.5
	Ranked	cytohesin 4. [swissprot;acc:q9uia0]		1.86667	15	28
		ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	0	2.17144	5510.5	11965.7
	Squared	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		187479	0.00001	1.87479
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	11.544	314.926	27.2805
	Rooted	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	943398	0.00001	9.43398
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	1	1.84327	33.9632	18.4255
6	Measured	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	8900000	0.00001	89
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	3.39764	1153.5	339.5
	Ranked	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]		1.86667	15	28
		ubiquitin protein ligase. [refseq;acc:nm_130466]	0	2.03897	7523	15339.2
	Squared	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		187479	0.00001	1.87479
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	11.544	314.926	27.2805
	Rooted	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	0	943398	0.00001	9.43398
		junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	1	1.84327	33.9632	18.4255
7	Measured	sedlin. [swissprot;acc:o14582]	0	4300000	0.00001	43
		sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	1	3.39764	1153.5	339.5

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.