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 Network Comparison Type Value Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1677 to 1726 of 3228 in total 
Network Comparison Type	Divided
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	red	network_comparison	green	
1677	glutathione s-transferase p (ec 2.5.1.18) (gst class-pi) (gstp1-1). [source:swissprot;acc:p09211]	218.654	1.01408	221.732	
1678	serine/threonine protein kinase 23 (ec 2.7.1.37) (muscle-specific serine kinase 1) (mssk-1). [source:swissprot;acc:q9upe1]	216.899	1.01407	213.889	
1679	gtp binding protein 2. [source:refseq;acc:nm_019096]	216.899	1.01407	213.889	
1680	cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [source:swissprot;acc:q99941]	216.899	1.01407	213.889	
1681	dna segment on chromosome 6(unique) 2654 expressed sequence; dna segment on chromosome x (unique) 2654 expressed sequence. [source:refseq;acc:nm_012135]	216.899	1.01407	213.889	
1682	sfrs protein kinase 2 isoform b. [source:refseq;acc:nm_182691]	216.899	1.01407	213.889	
1683	cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [source:swissprot;acc:p18850]	216.899	1.01407	213.889	
1684	sfrs protein kinase 1; sr protein kinase 1. [source:refseq;acc:nm_003137]	216.899	1.01407	213.889	
1685	xap-5 protein (hxc-26 protein). [source:swissprot;acc:q14320]	216.899	1.01407	213.889	
1686	putative sialoglycoprotease type 2. [source:refseq;acc:nm_022353]	220.75	1.01399	217.704	
1687	atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p30049]	215.345	1.01393	212.386	
1688	transcription factor-like protein mrg15 (morf-related gene 15 protein) (mortality factor 4-like 1) (msl3-1 protein) (hspc008/hspc061). [source:swissprot;acc:q9ubu8]	228.523	1.01392	231.703	
1689	dead-box protein 4 (vasa homolog). [source:swissprot;acc:q9nqi0]	228.277	1.01383	225.163	
1690	40s ribosomal protein s24 (s19). [source:swissprot;acc:p16632]	224.091	1.0138	227.184	
1691	translation initiation factor if-2. [source:swissprot;acc:o60841]	217.263	1.01376	214.315	
1692	rna-binding protein 9 (rna binding motif protein 9) (hexaribonucleotide binding protein 2) (repressor of tamoxifen transcriptional activity). [source:swissprot;acc:o43251]	218.515	1.01375	215.551	
1693	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [source:swissprot;acc:p12268]	218.937	1.01373	215.971	
1694	gmp synthase [glutamine-hydrolyzing] (ec 6.3.5.2) (glutamine amidotransferase) (gmp synthetase). [source:swissprot;acc:p49915]	218.937	1.01373	215.971	
1695	inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [source:swissprot;acc:p20839]	218.937	1.01373	215.971	
1696	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [source:swissprot;acc:q9h361]	217.624	1.01367	214.69	
1697	hskin17 protein. [source:refseq;acc:nm_012311]	217.624	1.01367	214.69	
1698	carnitine o-acetyltransferase (ec 2.3.1.7) (carnitine acetylase) (cat). [source:swissprot;acc:p43155]	217.624	1.01367	214.69	
1699	polyadenylate-binding protein 4 (poly(a)-binding protein 4) (pabp 4) (inducible poly(a)-binding protein) (ipabp) (activated-platelet protein-1) (app-1). [source:swissprot;acc:q13310]	217.624	1.01367	214.69	
1700	polyadenylate-binding protein 1 (poly(a)-binding protein 1) (pabp 1). [source:swissprot;acc:p11940]	217.624	1.01367	214.69	
1701	glucose-6-phosphate 1-dehydrogenase (ec 1.1.1.49) (g6pd). [source:swissprot;acc:p11413]	216.079	1.01363	219.024	
1702	dna-repair protein xrcc3 (x-ray repair cross-complementing protein 3). [source:swissprot;acc:o43542]	216.079	1.01363	219.024	
1703	atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [source:swissprot;acc:o94762]	216.079	1.01363	219.024	
1704	ataxin 2-binding protein. [source:swissprot;acc:q9nwb1]	218.514	1.01362	215.577	
1705	serine/threonine protein phosphatase 4 (ec 3.1.3.16) (pp4) (protein phosphatase x) (pp-x). [source:swissprot;acc:p33172]	223.846	1.01358	220.847	
1706	immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [source:swissprot;acc:p78318]	223.846	1.01358	220.847	
1707	mitotic checkpoint serine/threonine-protein kinase bub1 beta (ec 2.7.1.-) (hbubr1) (mad3/bub1-related protein kinase) (mitotic checkpoint kinase mad3l). [source:swissprot;acc:o60566]	221.283	1.01351	218.334	
1708	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	221.283	1.01351	218.334	
1709	homeobox protein prh (hematopoietically expressed homeobox) (homeobox protein hex). [source:swissprot;acc:q03014]	198.014	1.01346	195.385	
1710	casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [source:swissprot;acc:p49674]	227.225	1.01345	224.21	
1711	biotin--protein ligase (ec 6.3.4.-) (biotin apo-protein ligase) [includes: biotin--[methylmalonyl-coa-carboxyltransferase] ligase (ec 6.3.4.9); biotin--[propionyl-coa-carboxylase [atp-hydrolyzing]] ligase (ec 6.3.4.10) (holocarboxylase synthetase) (hcs); biotin--[methylcrotonoyl-coa-carboxylase] ligase (ec 6.3.4.11); biotin--[acetyl-coa-carboxylase] ligase (ec 6.3.4.15)]. [source:swissprot;acc:p50747]	218.436	1.01337	215.553	
1712	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [source:swissprot;acc:q15544]	208.598	1.01331	211.375	
1713	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [source:swissprot;acc:q99963]	206.823	1.01329	204.111	
1714	armet protein precursor (arginine-rich protein). [source:swissprot;acc:p55145]	206.549	1.01327	203.844	
1715	histidine decarboxylase (ec 4.1.1.22) (hdc). [source:swissprot;acc:p19113]	206.549	1.01327	203.844	
1716	sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [source:swissprot;acc:q99962]	206.522	1.01327	203.818	
1717	o-sialoglycoprotein endopeptidase. [source:refseq;acc:nm_017807]	221.058	1.01327	218.164	
1718	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [source:swissprot;acc:q99961]	206.251	1.01325	203.553	
1719	helicase (fragment). [source:sptrembl;acc:q92771]	187.204	1.01322	189.679	
1720	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [source:refseq;acc:nm_030655]	187.205	1.01322	189.679	
1721	casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [source:swissprot;acc:p48730]	227.125	1.01321	224.164	
1722	40s ribosomal protein s13. [source:swissprot;acc:q02546]	220.899	1.01319	223.813	
1723	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [source:swissprot;acc:o95544]	212.36	1.01312	215.147	
1724	inositol polyphosphate multikinase. [source:refseq;acc:nm_152230]	217.676	1.01311	220.53	
1725	afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [source:swissprot;acc:q9y4w6]	217.676	1.01311	220.53	
1726	alpha-(1,6)-fucosyltransferase (ec 2.4.1.68) (glycoprotein 6-alpha-l- fucosyltransferase) (gdp-fucose--glycoprotein fucosyltransferase) (gdp-l-fuc:n-acetyl-beta-d-glucosaminide alpha1,6-fucosyltransferase) (alpha1-6fuct) (fucosyltransferase 8). [source:swissprot;acc:q9byc5]	217.676	1.01311	220.53	

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/