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

Results: HTML CSV LaTeX

Showing element 758 to 807 of 3228 in total

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

Rank	green	red	description	network_comparison
758	235.583	224.434	phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058]	1.04968
759	243.289	231.809	osteoclast stimulating factor 1. [swissprot;acc:q92882]	1.04952
760	234.458	246.055	upf0202 protein kiaa1709. [swissprot;acc:q9h0a0]	1.04946
761	203.303	213.325	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	1.0493
762	203.237	213.256	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]
763	218.091	228.78	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	1.04901
764	211.707	222.082	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]
765	218.343	229.045	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]
766	224.226	213.804	protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6]	1.04875
767	224.224	213.803	rho interacting protein 3. [refseq;acc:nm_015134]	1.04874
768	221.225	210.946	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	1.04873
769			cab2. [refseq;acc:nm_033419]
770			dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]
771			dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685]
772			eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]
773			suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]
774	215.535	225.996	multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]	1.04854
775	215.541	226.003	histone deacetylase 2 (hd2). [swissprot;acc:q92769]
776	215.535	225.996	dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8]
777	215.53	225.989	histone deacetylase 1 (hd1). [swissprot;acc:q13547]	1.04853
778	219.332	209.191	sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7]	1.04848
779	241.641	230.516	deoxycytidylate deaminase (ec 3.5.4.12) (dcmp deaminase). [swissprot;acc:p32321]	1.04826
780	243.933	232.762	dna-directed rna polymerase ii 14.4 kda polypeptide (ec 2.7.7.6) (rpb6) (rpb14.4) (rpabc2). [swissprot;acc:p41584]	1.04799
781	257.636	245.84	ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [refseq;acc:nm_016183]	1.04798
782	235.131	224.385	translin. [swissprot;acc:q15631]	1.04789
783			translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
784			polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]
785	233.508	244.447	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863]	1.04685
786			rho guanine nucleotide exchange factor 3; rhogef protein; 59.8 kda protein; exchange factor found in platelets and leukemic and neuronal tissues, xpln. [refseq;acc:nm_019555]
787			down-regulated in metastasis. [refseq;acc:nm_014503]
788	132.538	138.705	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	1.04653
789	234.511	224.244	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	1.04578
790			40s ribosomal protein s21. [swissprot;acc:p35265]
791			cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]
792			maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
793			bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]
794			plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]
795			serpin b11. [swissprot;acc:q96p15]
796			placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]
797			cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
798			leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]
799	212.404	221.965	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	1.04501
800			nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]
801	214.894	224.445	beta-catenin (pro2286). [swissprot;acc:p35222]	1.04445
802	221.785	212.386	testis-specific protein tex28. [swissprot;acc:o15482]	1.04425
803			similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61]
804			a kindred of iglon. [refseq;acc:nm_173808]
805			ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1]
806			inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370]
807			palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [swissprot;acc:p50897]

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.