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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 2118 to 2167 of 6456 in total

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

Rank	description	Network Comparison Type	green	red	network_comparison
1059	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	153.371	147.211	6.16
1060	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]	Divided	211.648	218.162	1.03078
	septin 6. [swissprot;acc:q14141]	Subtracted	120.463	126.604	6.141
1061	adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]		211.185	217.323	6.138
	elks protein. [refseq;acc:nm_015064]	Divided	211.648	218.162	1.03078
1062	brain protein 44. [swissprot;acc:o95563]	Subtracted	120.078	126.215	6.137
	zinc finger protein 174 (aw-1). [swissprot;acc:q15697]	Divided	278.239	269.963	1.03066
1063	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Subtracted	120.078	126.215	6.137
	zinc finger imprinted 2. [swissprot;acc:q9nzv7]	Divided	278.232	269.96	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	211.183	217.315	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	278.221	269.955	1.03062
1065	septin 10 isoform 1. [refseq;acc:nm_144710]	Subtracted	119.402	125.526	6.124
	zinc finger protein 305. [swissprot;acc:o43309]	Divided	278.219	269.954	1.03062
1066	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Subtracted	118.318	124.434	6.116
	zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022]	Divided	278.223	269.956	1.03062
1067	mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620]	Subtracted	207.463	213.552	6.089
	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58]	Divided	278.223	269.956	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	206.339	212.345	6.006
	zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6]	Divided	278.215	269.953	1.03061
1069	candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822]	Subtracted	235.246	229.243	6.003
	zinc finger protein 232. [swissprot;acc:q9uny5]	Divided	278.218	269.954	1.03061
1070	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161]	Subtracted	222.782	216.78	6.002
	zinc finger protein 99. [refseq;acc:nm_032164]	Divided	278.218	269.954	1.03061
1071	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0]		238.356	231.277
	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	Subtracted	235.508	241.496	5.988
1072	inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [swissprot;acc:q15181]		230.242	224.307	5.935
	zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771]	Divided	278.217	269.954	1.03061
1073	inorganic pyrophosphatase 2 isoform 1. [refseq;acc:nm_176869]	Subtracted	230.242	224.307	5.935
	ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9]	Divided	210.485	216.901	1.03048
1074	aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9]	Subtracted	230.242	224.307	5.935
	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	Divided	179.697	174.387	1.03045
1075	ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170]	Subtracted	230.242	224.307	5.935
	coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]	Divided	179.697	174.387	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	203.208	209.123	5.915
1077	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]	Divided	179.697	174.387	1.03045
	translationally controlled tumor protein (tctp) (p23) (histamine- releasing factor) (hrf). [swissprot;acc:p13693]	Subtracted	212.209	218.098	5.889
1078	interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167]		212.119	218.006	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	179.697	174.387	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	215.399	221.286	5.887
1080	proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [swissprot;acc:q9uq80]		215.4	221.285	5.885
	zinc finger protein 444; endothelial zinc finger protein 2. [refseq;acc:nm_018337]	Divided	278.093	269.896	1.03037
1081	40s ribosomal protein s30. [swissprot;acc:q05472]		216.875	223.44	1.03027
	homeobox protein six2 (sine oculis homeobox homolog 2). [swissprot;acc:q9npc8]	Subtracted	215.401	221.285	5.884
1082	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194]		203.183	209.052	5.869
	phafin 2; ph and fyve domain-containing protein 2. [refseq;acc:nm_024613]	Divided	213.685	220.118	1.03011
1083	3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]
	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	Subtracted	212.123	217.99	5.867
1084	3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213]	Divided	213.685	220.118	1.03011

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.