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	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 7914 to 7963 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
1979	26s proteasome non-atpase regulatory subunit 4 (26s proteasome regulatory subunit s5a) (rpn10) (multiubiquitin chain binding protein) (antisecretory factor-1) (af) (asf). [swissprot;acc:p55036]	Measured	5475.74	5800.97	1.05939
	sestrin 1 (p53-regulated protein pa26). [swissprot;acc:q9y6p5]	Squared	24782.4	27081	1.09275
	tumor differentially expressed protein 1 (transmembrane protein sbbi99). [swissprot;acc:q13530]	Ranked	209.539	207.529	1.00969
1980	40s ribosomal protein s3. [swissprot;acc:p23396]	Squared	12856.2	14048	1.0927
	bile acid coenzyme a: amino acid n-acyltransferase; glycine n-choloyltransferase. [refseq;acc:nm_001701]	Measured	5830.46	6176.71	1.05939
	serine/threonine protein kinase 12 (ec 2.7.1.37) (aurora- and ipl1- like midbody-associated protein 1) (aim-1) (aurora/ipl1-related kinase 2) (aurora-related kinase 2) (stk-1) (aurora-b). [swissprot;acc:q96gd4]	Rooted	61.7883	63.4933	1.02759
	tumor differentially expressed 1 protein like. [swissprot;acc:q9nrx5]	Ranked	209.539	207.529	1.00969
1981	d-3-phosphoglycerate dehydrogenase (ec 1.1.1.95) (3-pgdh). [swissprot;acc:o43175]
	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	Squared	12949.3	14147.8	1.09255
	inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [swissprot;acc:q01968]	Measured	5475.74	5800.97	1.05939
	kinesin-like protein kif23 (mitotic kinesin-like protein-1) (kinesin- like protein 5). [swissprot;acc:q02241]	Rooted	61.7883	63.4933	1.02759
1982	40s ribosomal protein s28. [swissprot;acc:p25112]	Ranked	200.343	198.427	1.00966
	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Squared	12039.4	13153.3	1.09252
	serine/threonine protein kinase 13 (ec 2.7.1.37) (aurora/ipl1/eg2 protein 2) (aurora/ipl1-related kinase 3) (aurora-c). [swissprot;acc:q9uqb9]	Rooted	61.7883	63.4933	1.02759
	uv excision repair protein rad23 homolog b (hhr23b) (xp-c repair complementing complex 58 kda protein) (p58). [swissprot;acc:p54727]	Measured	5475.74	5800.97	1.05939
1983	lim protein (similar to rat protein kinase c-binding enigma); enigma homolog. [refseq;acc:nm_006457]	Ranked	219.25	217.175	1.00955
	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	Squared	12686.9	13857.6	1.09228
	myosin vi. [swissprot;acc:q9um54]	Measured	5475.74	5800.97	1.05939
	serine/threonine kinase 6 (ec 2.7.1.37) (serine/threonine kinase 15) (aurora/ipl1-related kinase 1) (aurora-related kinase 1) (hark1) (aurora-a) (breast-tumor-amplified kinase). [swissprot;acc:o14965]	Rooted	61.7883	63.4933	1.02759
1984	60s ribosomal protein l5. [swissprot;acc:p46777]	Squared	12586.8	13748.2	1.09227
	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	Rooted	61.7883	63.4933	1.02759
	e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]	Ranked	219.26	217.193	1.00952
	peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753]	Measured	5830.03	6176.1	1.05936
1985	importin 4. [refseq;acc:nm_024658]	Rooted	60.943	62.6188	1.0275
	limkain beta 2. [refseq;acc:nm_025140]	Squared	26689.4	29149.1	1.09216
	mitochondrial ribosomal protein l24. [refseq;acc:nm_024540]	Ranked	219.26	217.193	1.00952
	scribble. [refseq;acc:nm_015356]	Measured	5516.89	5844.37	1.05936
1986	65 kda yes-associated protein (yap65). [swissprot;acc:p46937]	Ranked	219.26	217.193	1.00952
	lap (leucine-rich repeats and pdz) and no pdz protein. [refseq;acc:nm_018214]	Measured	5517.24	5844.68	1.05935
	methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898]	Squared	31643.5	34556.7	1.09206
	serpin b12. [swissprot;acc:q96p63]	Rooted	61.8616	63.5621	1.02749
1987	lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [refseq;acc:nm_004664]	Ranked	225.022	222.9	1.00952
	megsin (tp55) (serpin b7). [swissprot;acc:o75635]	Rooted	61.8616	63.5621	1.02749
	peroxisomal acyl-coa thioesterase 2b; likely ortholog of mouse peroxisomal acyl-coa thioesterase 2b. [refseq;acc:nm_152331]	Measured	5829.74	6175.69	1.05934
	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	Squared	14837.7	16203.5	1.09205
1988	9 kda protein. [swissprot;acc:p13994]	Ranked	219.26	217.193	1.00952
	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	Rooted	61.8616	63.5621	1.02749
	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Measured	3559.49	3360.39	1.05925
	seven in absentia homolog 2. [refseq;acc:nm_005067]	Squared	24151.6	26364.8	1.09164
1989	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]		12388.6	13523.5	1.09161
	collagen alpha 3(iv) chain precursor (goodpasture antigen). [swissprot;acc:q01955]	Ranked	219.261	217.195	1.00951
	m-phase inducer phosphatase 2 (ec 3.1.3.48) (dual specificity phosphatase cdc25b). [swissprot;acc:p30305]	Measured	4383.34	4642.93	1.05922
	oxysterols receptor lxr-beta (liver x receptor beta) (nuclear orphan receptor lxr-beta) (ubiquitously-expressed nuclear receptor) (nuclear receptor ner). [swissprot;acc:p55055]	Rooted	61.8616	63.5621	1.02749
1990	collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400]	Ranked	219.26	217.194	1.00951
	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	Squared	12388.6	13523.5	1.09161
	transcription factor-like protein mrg15 (morf-related gene 15 protein) (mortality factor 4-like 1) (msl3-1 protein) (hspc008/hspc061). [swissprot;acc:q9ubu8]	Measured	5045.67	5344.06	1.05914
	upf0183 protein. [swissprot;acc:q9bsu1]	Rooted	61.8616	63.5621	1.02749
1991	antithrombin-iii precursor (atiii) (pro0309). [swissprot;acc:p01008]
	mitochondrial ribosomal protein l18. [refseq;acc:nm_014161]	Squared	24134.9	26345.3	1.09159
	solute carrier family 2, facilitated glucose transporter, member 6 (glucose transporter type 6) (glucose transporter type 9). [swissprot;acc:q9ugq3]	Measured	5429.27	5749.69	1.05902

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.