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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	Network Comparison Type	red	network_comparison	green
7	Ranked	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	Divided	215	1.49767	322
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Subtracted	288.754	76.2	212.554
	Squared	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		310840	132153	442993
		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]	Divided	314.926	11.544	27.2805
	Rooted	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Subtracted	145.551	23.245	168.796
		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]	Divided	33.9632	1.84327	18.4255
8	Measured	db83 protein. [swissprot;acc:p57088]		1153.5	3.39764	339.5
		pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Subtracted	21185	7307	28492
	Ranked	hbs1-like. [refseq;acc:nm_006620]	Divided	215	1.49767	322
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Subtracted	288	74	362
	Squared	db83 protein. [swissprot;acc:p57088]	Divided	314.926	11.544	27.2805
		deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Subtracted	250303	104591	354894
	Rooted	db83 protein. [swissprot;acc:p57088]	Divided	33.9632	1.84327	18.4255
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Subtracted	145.551	23.245	168.796
9	Measured	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]		21185	7307	28492
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Divided	398.5	3.21581	1281.5
	Ranked	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Subtracted	288	74	362
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided	212	1.45755	309
	Squared	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	Subtracted	256169	93652	162517
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Divided	37.5863	10.3414	388.696
	Rooted	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Subtracted	145.551	23.245	168.796
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Divided	19.9625	1.79326	35.798
10	Measured	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Subtracted	21185	7307	28492
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Divided	398.5	3.21581	1281.5
	Ranked	protein x 0004. [refseq;acc:nm_016301]		212	1.45755	309
		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]	Subtracted	288	74	362
	Squared	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]		219048	89286	129762
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Divided	37.5863	10.3414	388.696
	Rooted			19.9625	1.79326	35.798
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Subtracted	51.6817	22.169	29.5127
11	Measured	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Divided	398.5	3.21581	1281.5
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Subtracted	21185	7307	28492
	Ranked	db83 protein. [swissprot;acc:p57088]		288	74	362
		rad50-interacting protein 1. [refseq;acc:nm_021930]	Divided	337	1.45259	232
	Squared	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]		37.5863	10.3414	388.696
		hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Subtracted	219048	89286	129762
	Rooted	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Divided	19.9625	1.79326	35.798
		protein x 0004. [refseq;acc:nm_016301]	Subtracted	51.6817	22.169	29.5127
12	Measured	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Divided	398.5	3.21581	1281.5
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Subtracted	34190.9	6604.9	40795.8
	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		266.856	69.377	336.233
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Divided	337	1.45259	232
	Squared	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]		37.5863	10.3414	388.696
		melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Subtracted	219048	89286	129762
	Rooted	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]		80.4705	21.0555	101.526
		cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Divided	19.9625	1.79326	35.798
13	Measured	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]		398.5	3.21581	1281.5
		myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Subtracted	21591.5	6313	27904.5
	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]		266.856	69.377	336.233
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Divided	288.754	1.3585	212.554

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.