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 - 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 725 to 774 of 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
363	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	Divided	12780.7	10876.4	1.17509
	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	Subtracted	6856.71	7838.3	981.59
364	dok-like protein. [refseq;acc:nm_024872]		6102.59	7081.46	978.87
	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Divided	5189	6088.47	1.17334
365	calcyphosine. [swissprot;acc:q13938]
	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	Subtracted	6102.59	7081.46	978.87
366	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Divided	5189	6088.47	1.17334
	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	Subtracted	6102.59	7081.46	978.87
367	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	Divided	4024.4	4719.35	1.17268
	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	Subtracted	6102.59	7081.46	978.87
368	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	Divided	5082.66	5959.99	1.17261
	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Subtracted	7756.51	8731.76	975.25
369	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Divided	3583.56	4194.95	1.17061
	nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531]	Subtracted	7755.69	8730.74	975.05
370	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Divided	4108.15	4808.93	1.17058
	nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [swissprot;acc:p22392]	Subtracted	7753.59	8728.13	974.54
371	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]		4855.46	5824.52	969.06
	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	Divided	5067.02	5926.46	1.16961
372	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]		5067	5926.17	1.16956
	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Subtracted	4909.79	5878.79	969
373	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Divided	5066.99	5926.1	1.16955
	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	Subtracted	4682.88	5646.19	963.31
374	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]		4246.95	5208.98	962.03
	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Divided	5066.93	5925.38	1.16942
375	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]		4700.42	5492.63	1.16854
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Subtracted	4250.14	5211.25	961.11
376	44050 protein. [refseq;acc:nm_178832]	Divided	17385.9	14889.2	1.16769
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Subtracted	4251.65	5212.33	960.68
377	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]		4252.66	5213.05	960.39
	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)]. [swissprot;acc:q12972]	Divided	17385.9	14889.2	1.16769
378	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]		12471.7	14561.7	1.16758
	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	Subtracted	6272.91	7226.06	953.15
379	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Divided	6704.44	7811.45	1.16512
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	4244.95	5193.42	948.47
380	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Divided	12998.5	15138.2	1.16461
	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Subtracted	4641.09	5588.75	947.66
381	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	Divided	5246.01	6109.31	1.16456
	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Subtracted	4641.09	5588.75	947.66
382	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	Divided	4533.74	5279.4	1.16447
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	Subtracted	2397.19	3343.62	946.43
383	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	Divided	4533.74	5279.4	1.16447
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	4247.36	5192.61	945.25
384	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	Divided	4533.74	5279.4	1.16447
	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590]	Subtracted	8061.05	9002.33	941.28
385	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081]		8056.09	8996.46	940.37
	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	Divided	4533.74	5279.4	1.16447
386	60s ribosomal protein l8. [swissprot;acc:p25120]
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	Subtracted	1833.01	892.67	940.34
387	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]
	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]	Divided	4533.74	5279.4	1.16447

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.