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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	description	Value Type	red	green	network_comparison
7	Divided	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]	Squared	314.926	27.2805	11.544
			Rooted	33.9632	18.4255	1.84327
	Subtracted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Measured	21185	28492	7307
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Squared	310840	442993	132153
		pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Rooted	145.551	168.796	23.245
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	288.754	212.554	76.2
8	Divided	db83 protein. [swissprot;acc:p57088]	Measured	1153.5	339.5	3.39764
			Squared	314.926	27.2805	11.544
			Rooted	33.9632	18.4255	1.84327
		hbs1-like. [refseq;acc:nm_006620]	Ranked	215	322	1.49767
	Subtracted	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Squared	250303	354894	104591
		junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Ranked	288	362	74
		pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Measured	21185	28492	7307
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Rooted	145.551	168.796	23.245
9	Divided	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Measured	398.5	1281.5	3.21581
			Squared	37.5863	388.696	10.3414
			Rooted	19.9625	35.798	1.79326
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Ranked	212	309	1.45755
	Subtracted	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]		288	362	74
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Rooted	145.551	168.796	23.245
		pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Measured	21185	28492	7307
		protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	Squared	256169	162517	93652
10	Divided	protein x 0004. [refseq;acc:nm_016301]	Ranked	212	309	1.45755
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Measured	398.5	1281.5	3.21581
			Squared	37.5863	388.696	10.3414
			Rooted	19.9625	35.798	1.79326
	Subtracted	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Squared	219048	129762	89286
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Measured	21185	28492	7307
		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]	Ranked	288	362	74
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Rooted	51.6817	29.5127	22.169
11	Divided	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Measured	398.5	1281.5	3.21581
			Squared	37.5863	388.696	10.3414
			Rooted	19.9625	35.798	1.79326
		rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked	337	232	1.45259
	Subtracted	db83 protein. [swissprot;acc:p57088]		288	362	74
		hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared	219048	129762	89286
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Measured	21185	28492	7307
		protein x 0004. [refseq;acc:nm_016301]	Rooted	51.6817	29.5127	22.169
12	Divided	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Measured	398.5	1281.5	3.21581
			Squared	37.5863	388.696	10.3414
			Rooted	19.9625	35.798	1.79326
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked	337	232	1.45259
	Subtracted	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Rooted	80.4705	101.526	21.0555
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	Ranked	266.856	336.233	69.377
		melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	219048	129762	89286
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Measured	34190.9	40795.8	6604.9
13	Divided	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]		398.5	1281.5	3.21581
			Squared	37.5863	388.696	10.3414
			Rooted	19.9625	35.798	1.79326
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	288.754	212.554	1.3585

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.