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 Interaction Map Network Comparison Type Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 932 to 981 of 3228 in total 
Value Type	Ranked
Interaction Map	High confidence
Network Comparison Type	Divided
Filtered	1

Rank	description	green	red	network_comparison	
932	mitochondrial translational release factor 1-like. [source:refseq;acc:nm_019041]	218.013	225.939	1.03636	
933	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [source:refseq;acc:nm_152414]	164.951	159.165	1.03635	
934	nucleolar rna-associated protein alpha isoform. [source:refseq;acc:nm_022917]	233.544	242.024	1.03631	
935	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [source:refseq;acc:nm_016538]	224.372	232.473	1.03611	
936	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [source:swissprot;acc:p13862]	224.372	232.473	1.03611	
937	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [source:swissprot;acc:q12874]	212.618	220.246	1.03588	
938	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [source:swissprot;acc:q15459]	212.618	220.246	1.03588	
939	breast cancer type 1 susceptibility protein. [source:swissprot;acc:p38398]	224.27	216.501	1.03588	
940	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [source:swissprot;acc:p04632]	205.088	212.442	1.03586	
941	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [source:swissprot;acc:o14497]	205.083	212.437	1.03586	
942	grancalcin. [source:swissprot;acc:p28676]	205.088	212.442	1.03586	
943	sorcin (22 kda protein) (cp-22) (v19). [source:swissprot;acc:p30626]	205.087	212.442	1.03586	
944	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [source:swissprot;acc:o75340]	205.083	212.437	1.03586	
945	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [source:refseq;acc:nm_020732]	205.085	212.44	1.03586	
946	histone h4. [source:swissprot;acc:p02304]	219.902	227.765	1.03576	
947	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [source:refseq;acc:nm_021069]	205.191	212.51	1.03567	
948	target of myb protein 1. [source:swissprot;acc:o60784]	209.824	217.254	1.03541	
949	huntingtin-associated protein-interacting protein (duo protein). [source:swissprot;acc:o60229]	209.826	217.253	1.0354	
950	dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [source:swissprot;acc:p28715]	261.821	252.873	1.03539	
951	triple functional domain protein (ptprf interacting protein). [source:swissprot;acc:o75962]	209.827	217.253	1.03539	
952	target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [source:refseq;acc:nm_144678]	209.83	217.252	1.03537	
953	polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [source:swissprot;acc:q01780]	205.466	198.494	1.03512	
954	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [source:swissprot;acc:o43708]	276.773	267.447	1.03487	
955	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [source:swissprot;acc:q9p0m9]	239.205	231.163	1.03479	
956	vinexin (sh3-containing adaptor molecule-1) (scam-1). [source:swissprot;acc:o60504]	204.732	211.812	1.03458	
957	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [source:swissprot;acc:p10398]	134.399	129.913	1.03453	
958	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [source:swissprot;acc:p04049]	134.406	129.921	1.03452	
959	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [source:swissprot;acc:p25388]	229.677	237.558	1.03431	
960	zuotin related factor-1 (m-phase phosphoprotein 11). [source:swissprot;acc:q99543]	229.677	237.558	1.03431	
961	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [source:swissprot;acc:q16537]	134.527	130.066	1.0343	
962	cyclin g2. [source:swissprot;acc:q16589]	134.527	130.066	1.0343	
963	cyclin g1 (cyclin g). [source:swissprot;acc:p51959]	134.527	130.066	1.0343	
964	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [source:swissprot;acc:q15172]	134.527	130.066	1.0343	
965	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [source:swissprot;acc:q9byg4]	204.964	211.987	1.03426	
966	tubby protein homolog. [source:swissprot;acc:p50607]	204.964	211.987	1.03426	
967	protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [source:swissprot;acc:p41743]	204.964	211.987	1.03426	
968	numb protein homolog (h-numb) (protein s171). [source:swissprot;acc:p49757]	204.964	211.987	1.03426	
969	tbc1 domain family member 5. [source:swissprot;acc:q92609]	204.964	211.987	1.03426	
970	tubby related protein 1 (tubby-like protein 1). [source:swissprot;acc:o00294]	204.964	211.987	1.03426	
971	vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [source:swissprot;acc:q9ubq0]	204.964	211.987	1.03426	
972	numb-like protein (numb-r). [source:swissprot;acc:q9y6r0]	204.964	211.987	1.03426	
973	tubby related protein 3 (tubby-like protein 3). [source:swissprot;acc:o75386]	204.964	211.987	1.03426	
974	vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [source:swissprot;acc:q96qk1]	204.964	211.987	1.03426	
975	protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [source:swissprot;acc:q05513]	204.964	211.987	1.03426	
976	t-cell activation wd repeat protein. [source:refseq;acc:nm_139281]	235.322	243.34	1.03407	
977	prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [source:swissprot;acc:q99471]	221.421	228.953	1.03402	
978	prefoldin subunit 6 (protein ke2). [source:swissprot;acc:o15212]	221.421	228.953	1.03402	
979	gcn5-like protein 1 (rt14 protein). [source:swissprot;acc:p78537]	195.386	202.027	1.03399	
980	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [source:swissprot;acc:p15056]	134.713	130.289	1.03396	
981	exocyst complex component sec6. [source:swissprot;acc:o60645]	200.398	207.186	1.03387	

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/