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 2151 to 2200 of 12912 in total 
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	Value Type	red	green	network_comparison	
538	integral membrane protein 2a (e25 protein). [source:swissprot;acc:o43736]	Squared	28657.6	34208.6	1.1937	
538	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [source:swissprot;acc:p23467]	Measured	10603.5	12069.4	1.13825	
539	homeobox protein hox-c9 (hox-3b). [source:swissprot;acc:p31274]	Rooted	66.0818	71.6537	1.08432	
539	protein cgi-27 (c21orf19-like protein). [source:swissprot;acc:q9y316]	Ranked	236.964	252.86	1.06708	
539	thymus-specific serine protease precursor (ec 3.4.-.-). [source:swissprot;acc:q9nqe7]	Measured	10603.5	12069.4	1.13825	
539	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [source:refseq;acc:nm_020135]	Squared	20613.1	24595.9	1.19322	
540	argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [source:swissprot;acc:p04424]	Squared	26048.6	31057.4	1.19229	
540	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q99928]	Rooted	66.082	71.6526	1.0843	
540	gk001 protein. [source:refseq;acc:nm_020198]	Measured	10603.5	12069.4	1.13825	
540	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [source:swissprot;acc:q99611]	Ranked	222.156	208.201	1.06703	
541	calsyntenin-2 precursor. [source:swissprot;acc:q9h4d0]	Measured	10600.3	12065.2	1.13819	
541	coatomer beta subunit (beta-coat protein) (beta-cop). [source:swissprot;acc:p53618]	Squared	53774.6	45105.5	1.1922	
541	flavoprotein oxidoreductase mical2. [source:refseq;acc:nm_014632]	Ranked	222.156	208.201	1.06703	
541	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [source:swissprot;acc:q14488]	Rooted	66.082	71.6526	1.0843	
542	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q8n1c3]	Rooted	66.082	71.6526	1.0843	
542	inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [source:refseq;acc:nm_003866]	Ranked	222.156	208.201	1.06703	
542	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [source:swissprot;acc:p31749]	Measured	3889.27	4426.74	1.13819	
542	s-adenosylmethionine synthetase alpha and beta forms (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-i/iii). [source:swissprot;acc:q00266]	Squared	26084.2	31084.3	1.19169	
543	calsyntenin-3 precursor. [source:swissprot;acc:q9bqt9]	Measured	10599.9	12064.7	1.13819	
543	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p47869]	Rooted	66.082	71.6525	1.0843	
543	glutamate carboxypeptidase-like protein 2 precursor. [source:swissprot;acc:q96kn2]	Squared	26612.5	31709	1.19151	
543	selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [source:swissprot;acc:p49903]	Ranked	222.156	208.201	1.06703	
544	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q16445]	Rooted	66.082	71.6525	1.0843	
544	inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [source:refseq;acc:nm_001566]	Ranked	222.156	208.201	1.06703	
544	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [source:swissprot;acc:q9y243]	Measured	3889.27	4426.74	1.13819	
544	ran binding protein 11. [source:refseq;acc:nm_016338]	Squared	26018.9	30994.1	1.19121	
545	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [source:swissprot;acc:p56537]	Ranked	248.866	233.287	1.06678	
545	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p18507]	Rooted	66.082	71.6526	1.0843	
545	membrane protein expressed in epithelial-like lung adenocarcinoma. [source:refseq;acc:nm_024792]	Squared	26010	30981.7	1.19115	
545	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [source:swissprot;acc:p31751]	Measured	3889.27	4426.74	1.13819	
546	atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p30049]	Squared	27162.5	32347.5	1.19089	
546	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [source:refseq;acc:nm_016123]	Rooted	66.082	71.6526	1.0843	
546	wiskott-aldrich syndrome protein (wasp). [source:swissprot;acc:p42768]	Ranked	207.222	194.262	1.06671	
546	zinc finger protein t86. [source:swissprot;acc:o00488]	Measured	4052.77	4612.54	1.13812	
547	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p48169]	Rooted	66.082	71.6525	1.0843	
547	proto-oncogene c-crk (p38) (adapter molecule crk). [source:swissprot;acc:p46108]	Ranked	207.26	194.346	1.06645	
547	s-adenosylmethionine synthetase gamma form (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-ii). [source:swissprot;acc:p31153]	Squared	25945.4	30892.3	1.19067	
547	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [source:refseq;acc:nm_020135]	Measured	5291.92	6020.19	1.13762	
548	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [source:swissprot;acc:p10109]	Measured	8268.19	9405.85	1.13759	
548	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [source:swissprot;acc:p78334]	Rooted	66.082	71.6525	1.0843	
548	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [source:swissprot;acc:p42684]	Ranked	207.26	194.346	1.06645	
548	vesicle-associated membrane protein 2 (vamp-2) (synaptobrevin 2). [source:swissprot;acc:p19065]	Squared	27516.2	32720	1.18912	
549	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [source:swissprot;acc:o60762]	Measured	5865.79	6671.23	1.13731	
549	phosphatidylserine receptor; phosphatidylserine receptor beta. [source:refseq;acc:nm_015167]	Rooted	66.082	71.6526	1.0843	
549	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [source:swissprot;acc:p12931]	Ranked	207.26	194.346	1.06645	
549	vesicle-associated membrane protein 1 (vamp-1) (synaptobrevin 1). [source:swissprot;acc:p23763]	Squared	27516.2	32720	1.18912	
550	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p14867]	Rooted	66.082	71.6525	1.0843	
550	prohibitin. [source:swissprot;acc:p35232]	Measured	5773.45	6563.69	1.13687	
550	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [source:swissprot;acc:p08631]	Ranked	207.26	194.346	1.06645	
550	vesicule-associated membrane protein 4 (vamp-4). [source:swissprot;acc:o75379]	Squared	27516.2	32720	1.18912	

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/