Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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 Value Type description Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 2463 to 2512 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	green	red	network_comparison	
2463	protocadherin 15 precursor. [source:swissprot;acc:q96qu1]	235.088	235.812	1.00308	
2464	solute carrier family 20 (phosphate transporter), member 1; glvr-1; pit-1; gibbon ape leukemia virus receptor 1. [source:refseq;acc:nm_005415]	235.088	235.812	1.00308	
2465	lipocalin-interacting membrane receptor. [source:refseq;acc:nm_018113]	235.088	235.812	1.00308	
2466	zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [source:swissprot;acc:p08151]	235.088	235.812	1.00308	
2467	suppressor of fused. [source:refseq;acc:nm_016169]	235.088	235.812	1.00308	
2468	zinc finger protein gli3. [source:swissprot;acc:p10071]	235.088	235.812	1.00308	
2469	limb region 1 protein; limb region 1. [source:refseq;acc:nm_022458]	235.088	235.812	1.00308	
2470	gastricsin precursor (ec 3.4.23.3) (pepsinogen c). [source:swissprot;acc:p20142]	235.088	235.812	1.00308	
2471	zinc finger protein gli2 (tax helper protein). [source:swissprot;acc:p10070]	235.088	235.812	1.00308	
2472	tumor endothelial marker 6; thyroid specific ptb domain protein; tensin 3. [source:refseq;acc:nm_022748]	217.564	218.218	1.00301	
2473	c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [source:swissprot;acc:q9upt6]	217.991	218.644	1.003	
2474	26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [source:swissprot;acc:p17980]	217.285	216.64	1.00298	
2475	c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [source:refseq;acc:nm_015319]	217.571	218.219	1.00298	
2476	xylulokinase homolog; xylulokinase (h. influenzae) homolog. [source:refseq;acc:nm_005108]	210.577	211.205	1.00298	
2477	mitochondrial ribosomal protein l30 isoform a. [source:refseq;acc:nm_145212]	216.801	216.177	1.00289	
2478	26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [source:swissprot;acc:q92524]	216.801	216.177	1.00289	
2479	rho-gtpase-activating protein 8. [source:swissprot;acc:q9nsg0]	218.72	218.093	1.00287	
2480	rho-gtpase-activating protein 1 (gtpase-activating protein rhoogap) (rho-related small gtpase protein activator) (cdc42 gtpase-activating protein) (p50-rhogap). [source:swissprot;acc:q07960]	218.72	218.093	1.00287	
2481	kinesin light chain 2 (klc 2). [source:swissprot;acc:q9h0b6]	218.72	218.093	1.00287	
2482	kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [source:swissprot;acc:p33176]	218.72	218.093	1.00287	
2483	kinesin heavy chain isoform 5c (kinesin heavy chain neuron-specific 2). [source:swissprot;acc:o60282]	218.72	218.093	1.00287	
2484	neuronal kinesin heavy chain (nkhc) (kinesin heavy chain isoform 5a) (kinesin heavy chain neuron-specific 1). [source:swissprot;acc:q12840]	218.72	218.093	1.00287	
2485	kinesin light chain 1 (klc 1). [source:swissprot;acc:q07866]	218.72	218.093	1.00287	
2486	transcription factor iiia (factor a) (tfiiia). [source:swissprot;acc:q92664]	218.72	218.093	1.00287	
2487	exocyst complex component sec3 (bm-012). [source:swissprot;acc:q9nv70]	218.72	218.093	1.00287	
2488	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [source:refseq;acc:nm_023934]	195.08	194.527	1.00284	
2489	dc11 protein. [source:refseq;acc:nm_020186]	195.08	194.527	1.00284	
2490	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [source:refseq;acc:nm_003905]	195.08	194.527	1.00284	
2491	5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [source:swissprot;acc:p22557]	195.08	194.527	1.00284	
2492	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [source:refseq;acc:nm_003968]	195.08	194.527	1.00284	
2493	ubiquitin-activating enzyme e1 (a1s9 protein). [source:swissprot;acc:p22314]	195.08	194.527	1.00284	
2494	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [source:swissprot;acc:o75746]	195.08	194.527	1.00284	
2495	melanoma antigen recognized by t cells 2. [source:refseq;acc:nm_018194]	195.08	194.527	1.00284	
2496	5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [source:swissprot;acc:p13196]	195.08	194.527	1.00284	
2497	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [source:swissprot;acc:q9ujs0]	195.08	194.527	1.00284	
2498	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [source:swissprot;acc:o14561]	195.08	194.527	1.00284	
2499	nin one binding protein; adenocarcinoma antigen recognized by t lymphocytes 4. [source:refseq;acc:nm_014062]	230.76	231.414	1.00283	
2500	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [source:swissprot;acc:o15392]	219.552	218.949	1.00275	
2501	protein kinase c binding protein 1 (rack7) (cutaneous t-cell lymphoma associated antigen se14-3) (ctcl tumor antigen se14-3) (zinc finger mynd domain containing protein 8). [source:swissprot;acc:q9ulu4]	216.809	217.398	1.00272	
2502	adenovirus 5 e1a-binding protein (bs69 protein). [source:swissprot;acc:q15326]	216.844	217.417	1.00264	
2503	26s protease regulatory subunit 4 (p26s4). [source:swissprot;acc:q03527]	216.137	215.581	1.00258	
2504	tensin. [source:refseq;acc:nm_022648]	217.682	218.238	1.00255	
2505	chromobox protein homolog 5 (heterochromatin protein 1 homolog alpha) (hp1 alpha) (antigen p25). [source:swissprot;acc:p45973]	188.326	187.853	1.00252	
2506	44050 protein. [source:refseq;acc:nm_178832]	151.009	151.386	1.0025	
2507	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [source:swissprot;acc:q12972]	151.009	151.386	1.0025	
2508	cerebral cell adhesion molecule. [source:refseq;acc:nm_016174]	193.871	194.349	1.00247	
2509	chromobox protein homolog 3 (heterochromatin protein 1 homolog gamma) (hp1 gamma) (modifier 2 protein) (hech). [source:swissprot;acc:q13185]	188.366	187.902	1.00247	
2510	grpe protein homolog 2, mitochondrial precursor (mt-grpe#2). [source:swissprot;acc:q8taa5]	234.948	234.384	1.00241	
2511	grpe protein homolog 1, mitochondrial precursor (mt-grpe#1) (hmge). [source:swissprot;acc:q9hav7]	234.948	234.384	1.00241	
2512	swi/snf-related matrix-associated actin-dependent regulator of chromatin d2; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60b; swp73-like protein; chromatin remodeling complex baf60b subunit; swi/snf complex 60 kda subunit b. [source:refseq;acc:nm_003077]	234.948	234.384	1.00241	

Legend:
- Rank is the rank after comparing the two networks
- 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.
- http://analysis.yellowcouch.org/