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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 0

green	network_comparison	red	Network Comparison Type	Rank	description
0	0	0	Subtracted	494	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]
				495	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
				496	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
				497	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
				498	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
				499	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
				500	rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
				501	h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
				502	brca1 associated protein. [refseq;acc:nm_006768]
	18	18		429	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]
	35	35		386	dok-like protein. [refseq;acc:nm_024872]
	60	60		338	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
	82	82		316	ero1-like. [refseq;acc:nm_014584]
	154	154		206	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
				207	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
	364	364		88	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
0.00001	1	0.00001	Divided	494	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]
				495	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
				496	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
				497	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
				498	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
				499	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
				500	rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
				501	h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
				502	brca1 associated protein. [refseq;acc:nm_006768]
	1800000	18		65	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]
	3500000	35		31	dok-like protein. [refseq;acc:nm_024872]
	6000000	60		22	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
	8200000	82		20	ero1-like. [refseq;acc:nm_014584]
	15400000	154		95	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
				96	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
	36400000	364		1	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
5.56738	35.8425	199.549		11	serpin b12. [swissprot;acc:q96p63]
	193.982		Subtracted	168
5.71669	34.8539	199.249	Divided	12	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
	193.532		Subtracted	169
6.50325	20.0687	130.512	Divided	14	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]
	124.009		Subtracted	258
11.5	1.21739	14	Divided	190	protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]
	2.5		Subtracted	489
14.3333	1.3721	19.6667	Divided	121	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
	5.3334		Subtracted	460
15	14	1		443	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
	15		Divided	16
17.6611	6.73106	118.878		21	syntaxin 10 (syn10). [swissprot;acc:o60499]
	101.217		Subtracted	269
18	18	0		428	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]
	1800000	0.00001	Divided	64
19	1.21053	23		195	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]
	4		Subtracted	464

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.