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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 19268 in total

Value Type  : Ranked
Filtered  : 0
Network Comparison Type  : Divided

red	green	Rank	Interaction Map	network_comparison	description
0.00001	0.00001	501	High confidence	1	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
		502			brca1 associated protein. [refseq;acc:nm_006768]
		837	Low confidence		gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]
		838			gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]
		839			cobw-like protein. [refseq;acc:nm_018491]
		841			gamma-glutamyltransferase. [sptrembl;acc:q14390]
		842			gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]
		843			gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]
394	394	500	High confidence		huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]
		840	Low confidence
772	754	433	High confidence	1.02387	trinucleotide repeat containing 15. [refseq;acc:nm_015575]
775	696	209		1.11351	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]
816	825	473		1.01103	cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]
930	953	432		1.02473	fibrillin 3. [refseq;acc:nm_032447]
1091	1021	307		1.06856	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]
1251	1373	243		1.09752	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]
1256	1294	622	Low confidence	1.03025	caspr5 protein isoform 1. [refseq;acc:nm_130773]
		623			contactin associated protein-like 3 precursor (cell recognition molecule caspr3). [swissprot;acc:q9bz76]
1543	1521	466	High confidence	1.01446	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
		730	Low confidence
2584	2772	450		1.07276	hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433]
2671.33	2668.83	832		1.00094	vps10 domain-containing receptor sorcs1 precursor (hsorcs). [swissprot;acc:q8wy21]
2939	2876	448	High confidence	1.02191	protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]
		674	Low confidence
3032	3141	602		1.03595	erythropoietin 4 immediate early response; uncharacterized hypothalamus protein ht010. [refseq;acc:nm_018471]
3190	1933	12		1.65028	anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]
3208.8	4871.6	19		1.5182	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]
		35	High confidence
3284	4554.5	52		1.38688	ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]
		53			ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966]
3464	3778	262		1.09065	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]
3474	2695	76		1.28905	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]
3609	4302.5	119		1.19216	mesoderm induction early response 1. [refseq;acc:nm_020948]
3710	3724	811	Low confidence	1.00377	cervical cancer 1 protooncogene protein p40; regulator of tp53. [refseq;acc:nm_015416]
3845	5699	40	High confidence	1.48218	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
3859	2582	21	Low confidence	1.49458	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]
		37	High confidence
4119	5397	72		1.31027	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7]
		73			phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]
4222.84	4817.62	157	Low confidence	1.14085	zinc finger protein 75. [swissprot;acc:p51815]
4223.15	4817.95	158		1.14084	putative zinc finger protein (fragment). [sptrembl;acc:q8n692]
		159			zinc finger y-chromosomal protein. [swissprot;acc:p08048]
4224.28	4819.15	160		1.14082	zinc finger-like protein (fragment). [sptrembl;acc:q9uia8]
4224.79	4819.7	161		1.14081	ttf-i interacting peptide 20 (fragment). [sptrembl;acc:o00455]
4225.51	4820.46	162		1.1408	zinc finger protein 77 (znfpt1) (fragment). [swissprot;acc:q15935]
4234.54	4830.06	163		1.14063	zinc finger protein 32 (zinc finger protein kox30) (fragment). [swissprot;acc:p17041]
4238.74	4834.52	164		1.14056	zinc finger protein 95 homolog (zfp-95). [swissprot;acc:q9y2l8]
4239.56	4835.4	165		1.14054	zinc finger protein 80 (znfpt17). [swissprot;acc:p51504]
4240.02	4835.88	166		1.14053	zinc finger protein 187. [refseq;acc:nm_152736]
		167			zinc finger protein 302 (znf135-like) (znf140-like). [swissprot;acc:q9nr11]

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.