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.

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

Results: HTML CSV LaTeX

Showing element 2451 to 2500 of 3228 in total

Network Comparison Type	Divided
Value Type	Ranked
Filtered	1
Interaction Map	High confidence

Rank	description	network_comparison	green	red	
2451	secretory carrier-associated membrane protein 2. [source:swissprot;acc:o15127]	1.00315	205.333	204.688	
2452	secretory carrier-associated membrane protein 3. [source:swissprot;acc:o14828]	1.00315	205.333	204.688	
2453	secretory carrier-associated membrane protein 1. [source:swissprot;acc:o15126]	1.00315	205.332	204.688	
2454	solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [source:swissprot;acc:q9ukg4]	1.00314	205.326	204.683	
2455	solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [source:swissprot;acc:q8wwt9]	1.00314	205.326	204.683	
2456	solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [source:swissprot;acc:q9bzw2]	1.00314	205.326	204.683	
2457	vesicle-fusing atpase (ec 3.6.4.6) (vesicular-fusion protein nsf) (n- ethylmaleimide sensitive fusion protein) (nem-sensitive fusion protein). [source:swissprot;acc:p46459]	1.00314	212.92	213.588	
2458	solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [source:swissprot;acc:q13183]	1.00314	205.326	204.683	
2459	phosphatidate cytidylyltransferase 1 (ec 2.7.7.41) (cdp-diglyceride synthetase 1) (cdp-diglyceride pyrophosphorylase 1) (cdp- diacylglycerol synthase 1) (cds 1) (ctp:phosphatidate cytidylyltransferase 1) (cdp-dag synthase 1) (cdp-dg synthetase 1). [source:swissprot;acc:q92903]	1.00309	205.286	204.653	
2460	pepsin a precursor (ec 3.4.23.1). [source:swissprot;acc:p00790]	1.00308	235.088	235.812	
2461	solute carrier family 20 (phosphate transporter), member 2; glvr-2; pit-2; gibbon ape leukemia virus receptor 2; murine leukemia virus, amphotropic; receptor. [source:refseq;acc:nm_006749]	1.00308	235.088	235.812	
2462	farnesyl pyrophosphate synthetase (fpp synthetase) (fps) (farnesyl diphosphate synthetase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10)]. [source:swissprot;acc:p14324]	1.00308	235.088	235.812	
2463	protocadherin 15 precursor. [source:swissprot;acc:q96qu1]	1.00308	235.088	235.812	
2464	solute carrier family 20 (phosphate transporter), member 1; glvr-1; pit-1; gibbon ape leukemia virus receptor 1. [source:refseq;acc:nm_005415]	1.00308	235.088	235.812	
2465	lipocalin-interacting membrane receptor. [source:refseq;acc:nm_018113]	1.00308	235.088	235.812	
2466	zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [source:swissprot;acc:p08151]	1.00308	235.088	235.812	
2467	suppressor of fused. [source:refseq;acc:nm_016169]	1.00308	235.088	235.812	
2468	zinc finger protein gli3. [source:swissprot;acc:p10071]	1.00308	235.088	235.812	
2469	limb region 1 protein; limb region 1. [source:refseq;acc:nm_022458]	1.00308	235.088	235.812	
2470	gastricsin precursor (ec 3.4.23.3) (pepsinogen c). [source:swissprot;acc:p20142]	1.00308	235.088	235.812	
2471	zinc finger protein gli2 (tax helper protein). [source:swissprot;acc:p10070]	1.00308	235.088	235.812	
2472	tumor endothelial marker 6; thyroid specific ptb domain protein; tensin 3. [source:refseq;acc:nm_022748]	1.00301	217.564	218.218	
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]	1.003	217.991	218.644	
2474	26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [source:swissprot;acc:p17980]	1.00298	217.285	216.64	
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]	1.00298	217.571	218.219	
2476	xylulokinase homolog; xylulokinase (h. influenzae) homolog. [source:refseq;acc:nm_005108]	1.00298	210.577	211.205	
2477	mitochondrial ribosomal protein l30 isoform a. [source:refseq;acc:nm_145212]	1.00289	216.801	216.177	
2478	26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [source:swissprot;acc:q92524]	1.00289	216.801	216.177	
2479	rho-gtpase-activating protein 8. [source:swissprot;acc:q9nsg0]	1.00287	218.72	218.093	
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]	1.00287	218.72	218.093	
2481	kinesin light chain 2 (klc 2). [source:swissprot;acc:q9h0b6]	1.00287	218.72	218.093	
2482	kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [source:swissprot;acc:p33176]	1.00287	218.72	218.093	
2483	kinesin heavy chain isoform 5c (kinesin heavy chain neuron-specific 2). [source:swissprot;acc:o60282]	1.00287	218.72	218.093	
2484	neuronal kinesin heavy chain (nkhc) (kinesin heavy chain isoform 5a) (kinesin heavy chain neuron-specific 1). [source:swissprot;acc:q12840]	1.00287	218.72	218.093	
2485	kinesin light chain 1 (klc 1). [source:swissprot;acc:q07866]	1.00287	218.72	218.093	
2486	transcription factor iiia (factor a) (tfiiia). [source:swissprot;acc:q92664]	1.00287	218.72	218.093	
2487	exocyst complex component sec3 (bm-012). [source:swissprot;acc:q9nv70]	1.00287	218.72	218.093	
2488	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [source:refseq;acc:nm_023934]	1.00284	195.08	194.527	
2489	dc11 protein. [source:refseq;acc:nm_020186]	1.00284	195.08	194.527	
2490	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [source:refseq;acc:nm_003905]	1.00284	195.08	194.527	
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]	1.00284	195.08	194.527	
2492	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [source:refseq;acc:nm_003968]	1.00284	195.08	194.527	
2493	ubiquitin-activating enzyme e1 (a1s9 protein). [source:swissprot;acc:p22314]	1.00284	195.08	194.527	
2494	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [source:swissprot;acc:o75746]	1.00284	195.08	194.527	
2495	melanoma antigen recognized by t cells 2. [source:refseq;acc:nm_018194]	1.00284	195.08	194.527	
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]	1.00284	195.08	194.527	
2497	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [source:swissprot;acc:q9ujs0]	1.00284	195.08	194.527	
2498	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [source:swissprot;acc:o14561]	1.00284	195.08	194.527	
2499	nin one binding protein; adenocarcinoma antigen recognized by t lymphocytes 4. [source:refseq;acc:nm_014062]	1.00283	230.76	231.414	
2500	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [source:swissprot;acc:o15392]	1.00275	219.552	218.949	

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/