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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

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

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.