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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

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Showing element 2110 to 2159 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
1055	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Subtracted	138.705	132.538	6.167
1056	methyltransferase like 2. [refseq;acc:nm_018396]		147.211	153.371	6.16
	vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]	Divided	219.01	212.468	1.03079
1057	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]
	cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763]	Subtracted	147.211	153.371	6.16
1058	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]	Divided	228.105	221.293	1.03078
	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	Subtracted	147.211	153.371	6.16
1059	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	Divided	228.105	221.293	1.03078
	proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824]	Subtracted	147.211	153.371	6.16
1060	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]	Divided	218.162	211.648	1.03078
	septin 6. [swissprot;acc:q14141]	Subtracted	126.604	120.463	6.141
1061	adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]		217.323	211.185	6.138
	elks protein. [refseq;acc:nm_015064]	Divided	218.162	211.648	1.03078
1062	brain protein 44. [swissprot;acc:o95563]	Subtracted	126.215	120.078	6.137
	zinc finger protein 174 (aw-1). [swissprot;acc:q15697]	Divided	269.963	278.239	1.03066
1063	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Subtracted	126.215	120.078	6.137
	zinc finger imprinted 2. [swissprot;acc:q9nzv7]	Divided	269.96	278.232	1.03064
1064	adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677]	Subtracted	217.315	211.183	6.132
	zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028]	Divided	269.955	278.221	1.03062
1065	septin 10 isoform 1. [refseq;acc:nm_144710]	Subtracted	125.526	119.402	6.124
	zinc finger protein 305. [swissprot;acc:o43309]	Divided	269.954	278.219	1.03062
1066	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Subtracted	124.434	118.318	6.116
	zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022]	Divided	269.956	278.223	1.03062
1067	mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620]	Subtracted	213.552	207.463	6.089
	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58]	Divided	269.956	278.223	1.03062
1068	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9]	Subtracted	212.345	206.339	6.006
	zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6]	Divided	269.953	278.215	1.03061
1069	candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822]	Subtracted	229.243	235.246	6.003
	zinc finger protein 232. [swissprot;acc:q9uny5]	Divided	269.954	278.218	1.03061
1070	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161]	Subtracted	216.78	222.782	6.002
	zinc finger protein 99. [refseq;acc:nm_032164]	Divided	269.954	278.218	1.03061
1071	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0]		231.277	238.356
	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	Subtracted	241.496	235.508	5.988
1072	inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [swissprot;acc:q15181]		224.307	230.242	5.935
	zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771]	Divided	269.954	278.217	1.03061
1073	inorganic pyrophosphatase 2 isoform 1. [refseq;acc:nm_176869]	Subtracted	224.307	230.242	5.935
	ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9]	Divided	216.901	210.485	1.03048
1074	aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9]	Subtracted	224.307	230.242	5.935
	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	Divided	174.387	179.697	1.03045
1075	ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170]	Subtracted	224.307	230.242	5.935
	coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]	Divided	174.387	179.697	1.03045
1076	coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]
	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]	Subtracted	209.123	203.208	5.915
1077	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]	Divided	174.387	179.697	1.03045
	translationally controlled tumor protein (tctp) (p23) (histamine- releasing factor) (hrf). [swissprot;acc:p13693]	Subtracted	218.098	212.209	5.889
1078	interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167]		218.006	212.119	5.887
	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]	Divided	174.387	179.697	1.03045
1079	coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]
	homeobox protein six1 (sine oculis homeobox homolog 1). [swissprot;acc:q15475]	Subtracted	221.286	215.399	5.887
1080	proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [swissprot;acc:q9uq80]		221.285	215.4	5.885

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.