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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2501 to 2550 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
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]	217.398	216.809	1.00272	
2502	adenovirus 5 e1a-binding protein (bs69 protein). [source:swissprot;acc:q15326]	217.417	216.844	1.00264	
2503	26s protease regulatory subunit 4 (p26s4). [source:swissprot;acc:q03527]	215.581	216.137	1.00258	
2504	tensin. [source:refseq;acc:nm_022648]	218.238	217.682	1.00255	
2505	chromobox protein homolog 5 (heterochromatin protein 1 homolog alpha) (hp1 alpha) (antigen p25). [source:swissprot;acc:p45973]	187.853	188.326	1.00252	
2506	44050 protein. [source:refseq;acc:nm_178832]	151.386	151.009	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]	151.386	151.009	1.0025	
2508	cerebral cell adhesion molecule. [source:refseq;acc:nm_016174]	194.349	193.871	1.00247	
2509	chromobox protein homolog 3 (heterochromatin protein 1 homolog gamma) (hp1 gamma) (modifier 2 protein) (hech). [source:swissprot;acc:q13185]	187.902	188.366	1.00247	
2510	grpe protein homolog 2, mitochondrial precursor (mt-grpe#2). [source:swissprot;acc:q8taa5]	234.384	234.948	1.00241	
2511	grpe protein homolog 1, mitochondrial precursor (mt-grpe#1) (hmge). [source:swissprot;acc:q9hav7]	234.384	234.948	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]	234.384	234.948	1.00241	
2513	swi/snf-related matrix-associated actin-dependent regulator of chromatin d3; rsc6p; mammalian chromatin remodeling complex brg1-associated factor 60c; swp73-like protein; chromatin remodeling complex baf60c subunit; swi/snf complex 60 kda subunit c. [source:refseq;acc:nm_003078]	234.384	234.948	1.00241	
2514	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [source:swissprot;acc:q96gm5]	234.384	234.948	1.00241	
2515	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [source:swissprot;acc:o76075]	215.835	216.341	1.00234	
2516	adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [source:swissprot;acc:q9p2n4]	215.835	216.341	1.00234	
2517	dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [source:swissprot;acc:o00273]	215.835	216.341	1.00234	
2518	ankyrin 3 (ank-3) (ankyrin g). [source:swissprot;acc:q12955]	215.835	216.341	1.00234	
2519	ankyrin 2 (brain ankyrin) (ankyrin b) (ankyrin, nonerythroid). [source:swissprot;acc:q01484]	215.835	216.341	1.00234	
2520	adp-ribosylation factor-like protein 3. [source:swissprot;acc:p36405]	215.835	216.341	1.00234	
2521	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [source:swissprot;acc:q9bzk7]	201.96	201.488	1.00234	
2522	unc-119 protein homolog (retinal protein 4) (hrg4). [source:swissprot;acc:q13432]	215.835	216.341	1.00234	
2523	importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [source:swissprot;acc:q14974]	201.96	201.488	1.00234	
2524	transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [source:swissprot;acc:o60907]	201.96	201.488	1.00234	
2525	26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [source:swissprot;acc:p48556]	215.835	216.341	1.00234	
2526	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [source:swissprot;acc:q9bq87]	201.96	201.488	1.00234	
2527	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [source:swissprot;acc:p51854]	209.143	208.659	1.00232	
2528	scribble. [source:refseq;acc:nm_015356]	221.782	222.291	1.0023	
2529	lap (leucine-rich repeats and pdz) and no pdz protein. [source:refseq;acc:nm_018214]	221.776	222.283	1.00229	
2530	proteasome subunit beta type 8 precursor (ec 3.4.25.1) (proteasome component c13) (macropain subunit c13) (multicatalytic endopeptidase complex subunit c13). [source:swissprot;acc:p28062]	212.464	211.99	1.00224	
2531	apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [source:refseq;acc:nm_014481]	216.264	215.787	1.00221	
2532	54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [source:swissprot;acc:q15233]	190.405	190.812	1.00214	
2533	paraspeckle protein 1. [source:refseq;acc:nm_018282]	190.417	190.824	1.00214	
2534	glycerol-3-phosphate dehydrogenase, mitochondrial precursor (ec 1.1.99.5) (gpd-m) (gpdh-m). [source:swissprot;acc:p43304]	208	207.555	1.00214	
2535	chromobox protein homolog 1 (heterochromatin protein 1 homolog beta) (hp1 beta) (modifier 1 protein) (m31) (heterochromatin protein p25). [source:swissprot;acc:p23197]	188.228	188.63	1.00214	
2536	geranylgeranyl pyrophosphate synthetase (ggpp synthetase) (ggppsase) (geranylgeranyl diphosphate synthase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10); farnesyltranstransferase (ec 2.5.1.29)]. [source:swissprot;acc:o95749]	236.51	236.008	1.00213	
2537	vacuolar protein sorting-associated protein 45 (h-vps45) (hlvps45). [source:swissprot;acc:q9nrw7]	215.964	216.421	1.00212	
2538	splicing factor, proline-and glutamine-rich (polypyrimidine tract- binding protein-associated splicing factor) (ptb-associated splicing factor) (psf) (dna-binding p52/p100 complex, 100 kda subunit). [source:swissprot;acc:p23246]	190.765	191.163	1.00209	
2539	gc-rich sequence dna-binding factor homolog. [source:swissprot;acc:q9y5b6]	217.144	216.699	1.00205	
2540	toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [source:swissprot;acc:o60603]	217.144	216.699	1.00205	
2541	aspartyl-trna synthetase (ec 6.1.1.12) (aspartate--trna ligase) (asprs). [source:swissprot;acc:p14868]	194.505	194.902	1.00204	
2542	p29ing4; candidate tumor suppressor p33 ing1 homolog. [source:refseq;acc:nm_016162]	218.068	217.633	1.002	
2543	tubulin tyrosine ligase-like protein hottl (hqp0207). [source:swissprot;acc:q9y4r7]	224.726	225.164	1.00195	
2544	aminomethyltransferase, mitochondrial precursor (ec 2.1.2.10) (glycine cleavage system t protein) (gcvt). [source:swissprot;acc:p48728]	212.67	212.262	1.00192	
2545	proteasome subunit beta type 9 precursor (ec 3.4.25.1) (proteasome chain 7) (macropain chain 7) (multicatalytic endopeptidase complex chain 7) (ring12 protein) (low molecular mass protein 2). [source:swissprot;acc:p28065]	213.494	213.088	1.00191	
2546	tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [source:refseq;acc:nm_015975]	197.138	197.507	1.00187	
2547	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14410]	206.894	206.51	1.00186	
2548	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:q14409]	206.899	206.516	1.00185	
2549	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [source:swissprot;acc:p32189]	206.902	206.519	1.00185	
2550	epsin 2 isoform b; eps15 binding protein. [source:refseq;acc:nm_014964]	217.587	217.988	1.00184	

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/