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.


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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2630 to 2679 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
2630	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [source:swissprot;acc:q9ubw7]	224.891	225.195	1.00135	
2631	actin-like protein 3 (actin-related protein 3) (actin-2). [source:swissprot;acc:p32391]	224.891	225.195	1.00135	
2632	arp2/3 complex 21 kda subunit (p21-arc) (actin-related protein 2/3 complex subunit 3). [source:swissprot;acc:o15145]	224.891	225.195	1.00135	
2633	nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [source:swissprot;acc:o43847]	224.891	225.195	1.00135	
2634	actin-related protein 2/3 complex subunit 1a (sop2-like protein). [source:swissprot;acc:q92747]	224.891	225.195	1.00135	
2635	pre-mrna cleavage complex ii protein clp1. [source:swissprot;acc:q92989]	166.612	166.393	1.00132	
2636	anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [source:swissprot;acc:q9nyg5]	195.635	195.384	1.00128	
2637	small glutamine rich protein with tetratricopeptide repeats 2. [source:refseq;acc:nm_019072]	187.075	186.84	1.00126	
2638	junctional adhesion molecule 1 precursor (jam) (platelet adhesion molecule 1) (pam-1) (platelet f11 receptor). [source:swissprot;acc:q9y624]	204.911	205.168	1.00125	
2639	myosin viia. [source:swissprot;acc:q13402]	220.658	220.386	1.00123	
2640	ubiquitin-conjugating enzyme e2 b (ec 6.3.2.19) (ubiquitin-protein ligase b) (ubiquitin carrier protein b) (hr6b) (hhr6b) (e2-17 kda). [source:swissprot;acc:p23567]	220.658	220.386	1.00123	
2641	ubiquitin-conjugating enzyme e2 a (ec 6.3.2.19) (ubiquitin-protein ligase a) (ubiquitin carrier protein a) (hr6a) (hhr6a). [source:swissprot;acc:p49459]	220.658	220.386	1.00123	
2642	topoisomerase (dna) ii binding protein. [source:refseq;acc:nm_007027]	194.097	194.328	1.00119	
2643	acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [source:swissprot;acc:q15067]	194.097	194.328	1.00119	
2644	atp synthase f chain, mitochondrial (ec 3.6.3.14). [source:swissprot;acc:p56134]	194.097	194.328	1.00119	
2645	probable atp-dependent helicase ddx35 (deah-box protein 35). [source:swissprot;acc:q9h5z1]	194.097	194.328	1.00119	
2646	tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [source:swissprot;acc:q9y3q8]	213.169	213.417	1.00116	
2647	s-adenosylmethionine synthetase alpha and beta forms (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-i/iii). [source:swissprot;acc:q00266]	212.496	212.25	1.00116	
2648	sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [source:refseq;acc:nm_003676]	213.169	213.417	1.00116	
2649	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [source:swissprot;acc:q9gzt8]	213.63	213.874	1.00114	
2650	kh-type splicing regulatory protein (fuse binding protein 2); kh-type splicing regulatory protein (fuse-binding protein 2). [source:refseq;acc:nm_003685]	217.188	216.942	1.00113	
2651	nf-kappab inhibitor epsilon (nf-kappa-bie) (i-kappa-b-epsilon) (ikappabepsilon) (ikb-epsilon) (ikbe). [source:swissprot;acc:o00221]	201.37	201.594	1.00111	
2652	nuclear factor nf-kappa-b p105 subunit (dna-binding factor kbf1) (ebp- 1) [contains: nuclear factor nf-kappa-b p50 subunit]. [source:swissprot;acc:p19838]	201.451	201.673	1.0011	
2653	nf-kappab inhibitor beta (nf-kappa-bib) (i-kappa-b-beta) (ikappabbeta) (ikb-beta) (ikb-b) (thyroid receptor interacting protein 9) (tr- interacting protein 9). [source:swissprot;acc:q15653]	201.452	201.674	1.0011	
2654	nuclear factor nf-kappa-b p100/p49 subunits (h2tf1) (oncogene lyt-10) (lyt10) [contains: nuclear factor nf-kappa-b p52 subunit]. [source:swissprot;acc:q00653]	201.452	201.674	1.0011	
2655	b-cell lymphoma 3-encoded protein (bcl-3 protein). [source:swissprot;acc:p20749]	201.445	201.667	1.0011	
2656	far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [source:refseq;acc:nm_003902]	217.179	216.943	1.00109	
2657	channel associated protein of synapse-110 (chapsyn-110) (discs, large homolog 2). [source:swissprot;acc:q15700]	216.934	216.7	1.00108	
2658	presynaptic density protein 95 (psd-95) (discs, large homolog 4) (postsynaptic density-95). [source:swissprot;acc:p78352]	216.933	216.7	1.00108	
2659	presynaptic protein sap102 (synapse-associated protein 102) (neuroendocrine-dlg) (ne-dlg) (discs, large homolog 3). [source:swissprot;acc:q92796]	216.933	216.7	1.00108	
2660	presynaptic protein sap97 (synapse-associated protein 97) (discs, large homolog 1) (hdlg). [source:swissprot;acc:q12959]	216.937	216.704	1.00108	
2661	proto-oncogene tyrosine-protein kinase fes/fps (ec 2.7.1.112) (c-fes). [source:swissprot;acc:p07332]	204.768	204.549	1.00107	
2662	molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [source:swissprot;acc:o96007]	204.768	204.549	1.00107	
2663	anaphase-promoting complex subunit 10; anaphase-promoting complex 10. [source:refseq;acc:nm_014885]	204.768	204.549	1.00107	
2664	60s ribosomal protein l29 (cell surface heparin binding protein hip). [source:swissprot;acc:p47914]	204.768	204.549	1.00107	
2665	proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [source:swissprot;acc:p16591]	204.768	204.549	1.00107	
2666	thioredoxin domain containing; thioredoxin-related transmembrane protein; thioredoxin domain-containing. [source:refseq;acc:nm_030755]	210.136	209.911	1.00107	
2667	molybdenum cofactor synthesis protein 3 (molybdopterin synthase sulfurylase) (mpt synthase sulfurylase). [source:swissprot;acc:o95396]	204.768	204.549	1.00107	
2668	fuse binding protein 3 (fragment). [source:sptrembl;acc:q92946]	217.176	216.944	1.00107	
2669	glycerol-3-phosphate dehydrogenase [nad+], cytoplasmic (ec 1.1.1.8) (gpd-c) (gpdh-c). [source:swissprot;acc:p21695]	214.575	214.354	1.00103	
2670	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [source:swissprot;acc:p01116]	144.391	144.538	1.00102	
2671	similar to glucosamine-phosphate n-acetyltransferase (hypothetical protein flj33258). [source:sptrembl;acc:q96ek6]	216.288	216.067	1.00102	
2672	branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [source:swissprot;acc:p54687]	210.957	210.741	1.00102	
2673	rad9 homolog; cell cycle checkpoint control protein; rad9 homolog (s. pombe). [source:refseq;acc:nm_004584]	216.372	216.588	1.001	
2674	glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [source:swissprot;acc:p15104]	203.151	202.948	1.001	
2675	28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [source:swissprot;acc:q9byn8]	214.893	215.108	1.001	
2676	enhancer of rudimentary homolog. [source:swissprot;acc:q14259]	214.893	215.108	1.001	
2677	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [source:swissprot;acc:q9uq13]	144.412	144.553	1.00098	
2678	ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [source:swissprot;acc:o15211]	144.411	144.552	1.00098	
2679	anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [source:refseq;acc:nm_013366]	190.142	189.959	1.00096	

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/