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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 2430 to 2479 of 3228 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Network Comparison Type  : Divided

green	Rank	description	red	network_comparison
6765.81	2348	ral-a exchange factor ralgps2. [refseq;acc:nm_152663]	6480.27	1.04406
	2350	stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861]
6774.12	1258	glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2]	6251.32	1.08363
6774.35	1068	exocyst complex component sec15a. [swissprot;acc:q8tag9]	6201.54	1.09237
6781.6	1404	mesoderm induction early response 1. [refseq;acc:nm_020948]	6291.89	1.07783
	1405	proteasome subunit alpha type 3 (ec 3.4.25.1) (proteasome component c8) (macropain subunit c8) (multicatalytic endopeptidase complex subunit c8). [swissprot;acc:p25788]
6783.01	906	ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	6165.1	1.10023
6785.04	1083	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	6213.51	1.09198
6785.98	904	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410]	6167.33	1.10031
6786.23	2259	ubiquitin-conjugating enzyme e2 g2 (ec 6.3.2.19) (ubiquitin-protein ligase g2) (ubiquitin carrier protein g2). [swissprot;acc:p56554]	6486.84	1.04615
	2261	38 kda fk-506 binding protein homolog (fkbpr38) (fk506-binding protein 8). [swissprot;acc:q14318]
6788.96	1600	14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758]	6336.22	1.07145
6797.24	2071	28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]	6437.24	1.05592
	2072	enhancer of rudimentary homolog. [swissprot;acc:q14259]
6803.44	1565	proteasome subunit alpha type 2 (ec 3.4.25.1) (proteasome component c3) (macropain subunit c3) (multicatalytic endopeptidase complex subunit c3). [swissprot;acc:p25787]	6343.76	1.07246
6803.95	1248	protein-tyrosine phosphatase, non-receptor type 2 (ec 3.1.3.48) (t- cell protein-tyrosine phosphatase) (tcptp). [swissprot;acc:p17706]	6275.86	1.08415
6805.39	1595	proteasome subunit beta type 8 precursor (ec 3.4.25.1) (proteasome component c13) (macropain subunit c13) (multicatalytic endopeptidase complex subunit c13). [swissprot;acc:p28062]	6351.32	1.07149
6807.51	1247	protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031]	6278.76	1.08421
6812.45	1497	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]	6339.08	1.07467
6814.18	2639	trehalase precursor (ec 3.2.1.28) (alpha,alpha-trehalase) (alpha,alpha-trehalose glucohydrolase). [swissprot;acc:o43280]	6742.48	1.01063
6815.41	1490	f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907]	6340.5	1.0749
6818.17	1807	endothelial-derived gene 1. [refseq;acc:nm_025205]	6399.54	1.06542
6819.38	1590	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [refseq;acc:nm_014281]	6364.01	1.07155
	1591	multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [swissprot;acc:q13155]
6820.5	1362	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	6322.75	1.07872
	1363	nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]
6823.73	1155	transducin-like enhancer protein 4. [swissprot;acc:q04727]	6270.67	1.0882
6824.41	2537	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	6669.22	1.02327
6824.47	657	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	6079.26	1.12258
6825.36	1540	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	6360.13	1.07315
6826.24	510	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	5975.11	1.14245
	511	serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955]
6827.51	2540	pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	6672.69	1.0232
6829.58	988	ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781]	6229.69	1.0963
6833.59	1580	glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976]	6376.12	1.07175
	1581	adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [swissprot;acc:p55263]
	1582	protein x 0001. [refseq;acc:nm_016302]
	1583	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]
6834.87	658	apical-like protein (apxl protein). [swissprot;acc:q13796]	6088.77	1.12254
6835.34	659	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	6089.21	1.12253
6837.01	1149	transducin-like enhancer protein 3 (esg3). [swissprot;acc:q04726]	6280.74	1.08857
6837.61	1143	homeobox protein engrailed-2 (hu-en-2). [swissprot;acc:p19622]	6281.21	1.08858
	1144	cpg binding protein (protein containing phd finger and cxxc domain 1). [swissprot;acc:q9p0u4]
	1146	activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375]
	1147	cytokine-like nuclear factor n-pac. [refseq;acc:nm_032569]
	1148	hect type e3 ubiquitin ligase. [refseq;acc:nm_015052]
6838.6	1495	nadh-ubiquinone oxidoreductase pdsw subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-pdsw) (ci-pdsw). [swissprot;acc:o96000]	6362.92	1.07476
6839.37	849	dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	6194.15	1.10417
	850	propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166]
6842.72	494	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]	5979.93	1.14428

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.