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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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 red green network_comparison
Results: HTML CSV LaTeX Showing element 351 to 400 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
176	dead-box protein abstrakt homolog. [source:swissprot;acc:q9ujv9]	0	13068	11528	1.13359	
176	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [source:swissprot;acc:q9nr33]	1	275.754	235.908	1.1689	
177	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [source:sptrembl;acc:q8wwk2]	1	229.406	196.695	1.1663	
177	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	0	14922.7	13174.5	1.1327	
178	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	1	226.887	194.72	1.1652	
178	integral membrane protein cii-3b. [source:sptrembl;acc:o75609]	0	14951.6	13204.2	1.13234	
179	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	1	226.884	194.79	1.16476	
179	mevalonate kinase (ec 2.7.1.36) (mk). [source:swissprot;acc:q03426]	0	9473.01	10723.7	1.13203	
180	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [source:swissprot;acc:p51513]	0	8407.67	9516.92	1.13193	
180	tar dna-binding protein-43 (tdp-43). [source:swissprot;acc:q13148]	1	256.228	298.438	1.16474	
181	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [source:refseq;acc:nm_015681]	1	229.818	267.265	1.16294	
181	importin 7; ran-binding protein 7. [source:refseq;acc:nm_006391]	0	14864.7	16820.7	1.13159	
182	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [source:swissprot;acc:o14929]	1	277.546	240.461	1.15422	
182	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [source:swissprot;acc:o95544]	0	11573.8	10231.3	1.13121	
183	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	1	228.306	198.011	1.153	
183	ubiquitin activating enzyme e1-like protein. [source:refseq;acc:nm_006395]	0	11613	13133.5	1.13093	
184	odd-skipped related 1; odz (odd oz/ten-m) related 1. [source:refseq;acc:nm_145260]	1	274.027	237.79	1.15239	
184	similar to zinc finger protein 277. [source:sptrembl;acc:q8wwa6]	0	6279.56	5569.42	1.12751	
185	adiponectin receptor 2. [source:refseq;acc:nm_024551]	1	281.582	246.371	1.14292	
185	zinc finger protein 277. [source:swissprot;acc:q9nrm2]	0	6279.56	5569.42	1.12751	
186	40s ribosomal protein s2 (s4) (llrep3 protein). [source:swissprot;acc:p15880]	0	11935.1	10592.8	1.12672	
186	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [source:refseq;acc:nm_001457]	1	226.582	198.444	1.14179	
187	adenylosuccinate synthase-like 1. [source:refseq;acc:nm_152328]	0	9955.22	11213.7	1.12641	
187	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [source:refseq;acc:nm_016316]	1	226.582	198.444	1.14179	
188	60s ribosomal protein l15. [source:swissprot;acc:p39030]	0	11745.2	13203.1	1.12413	
188	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [source:swissprot;acc:q99873]	1	226.582	198.444	1.14179	
189	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [source:swissprot;acc:q9nr22]	1	226.582	198.444	1.14179	
189	sal-like protein 4 (zinc finger protein sall4). [source:swissprot;acc:q9ujq4]	0	10634.4	9465	1.12355	
190	high-glucose-regulated protein 8 (ny-ren-2 antigen). [source:swissprot;acc:q9y5a9]	0	18809.5	16764.2	1.122	
190	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [source:swissprot;acc:p08621]	1	226.582	198.444	1.14179	
191	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	1	226.582	198.444	1.14179	
191	sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [source:swissprot;acc:q9nzq3]	0	18809.5	16764.2	1.122	
192	musashi 2 isoform a. [source:refseq;acc:nm_138962]	1	227.491	199.458	1.14055	
192	t-complex protein 1, zeta subunit (tcp-1-zeta) (cct-zeta) (cct-zeta-1) (tcp20) (htr3). [source:swissprot;acc:p40227]	0	12715.9	11333.2	1.122	
193	musashi 1. [source:refseq;acc:nm_002442]	1	227.491	199.458	1.14055	
193	transcription factor iiia (factor a) (tfiiia). [source:swissprot;acc:q92664]	0	10899.5	12217.4	1.12091	
194	kappa b-ras 1. [source:refseq;acc:nm_020345]	0	12657.7	11299.1	1.12024	
194	nuclear protein ukp68. [source:refseq;acc:nm_024824]	1	227.491	199.458	1.14055	
195	huntingtin interacting protein c. [source:refseq;acc:nm_012272]	1	227.971	200.417	1.13748	
195	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [source:swissprot;acc:p82650]	0	13942.8	15586.4	1.11788	
196	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [source:refseq;acc:nm_138457]	1	263.215	231.407	1.13745	
196	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [source:refseq;acc:nm_003169]	0	11064.2	9897.84	1.11784	
197	forkhead box protein p1 (hspc215). [source:swissprot;acc:q9h334]	1	263.215	231.407	1.13745	
197	importin 4. [source:refseq;acc:nm_024658]	0	12337.6	13788.9	1.11763	
198	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [source:swissprot;acc:q9bzs1]	1	263.191	231.394	1.13741	
198	ribosomal protein l10-like protein. [source:refseq;acc:nm_080746]	0	11781.5	10545.3	1.11723	
199	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [source:swissprot;acc:p27635]	0	11781.8	10545.7	1.11721	
199	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [source:swissprot;acc:q9umr5]	1	242.735	276.059	1.13729	
200	egf-like-domain, multiple 7; neu1 protein. [source:refseq;acc:nm_016215]	1	242.718	276.018	1.1372	
200	peptide chain release factor 1, mitochondrial precursor (mrf-1). [source:swissprot;acc:o75570]	0	8786.74	7870.3	1.11644	

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/