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

Results: HTML CSV LaTeX

Showing element 1625 to 1674 of 3228 in total

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

Rank	description	green	red	network_comparison	
1625	c18b11 homolog (44.9kd). [source:refseq;acc:nm_152260]	214.2	217.446	1.01515	
1626	z-protein (protein cgi-119) (s1r protein). [source:swissprot;acc:q9hc24]	214.2	217.446	1.01515	
1627	pp1201 protein. [source:refseq;acc:nm_022152]	214.2	217.446	1.01515	
1628	lifeguard; kiaa0950 protein. [source:refseq;acc:nm_012306]	214.2	217.446	1.01515	
1629	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [source:swissprot;acc:q12772]	214.2	217.446	1.01515	
1630	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [source:swissprot;acc:p36956]	214.2	217.446	1.01515	
1631	g1 to s phase transition protein 1 homolog (gtp-binding protein gst1-hs). [source:swissprot;acc:p15170]	215.533	218.789	1.01511	
1632	mitotic checkpoint protein bub3. [source:swissprot;acc:o43684]	218.658	221.934	1.01498	
1633	zinc finger protein 207. [source:swissprot;acc:o43670]	218.658	221.934	1.01498	
1634	malonyl-coa decarboxylase, mitochondrial precursor (ec 4.1.1.9) (mcd). [source:swissprot;acc:o95822]	212.596	215.772	1.01494	
1635	itchy homolog e3 ubiquitin protein ligase; atrophin-1 interacting protein 4; itchy (mouse homolog) e3 ubiquitin protein ligase; nfe2-associated polypeptide 1; ubiquitin protein ligase itch. [source:refseq;acc:nm_031483]	212.596	215.772	1.01494	
1636	beclin 1 (coiled-coil myosin-like bcl2-interacting protein) (protein gt197). [source:swissprot;acc:q14457]	199.408	202.358	1.01479	
1637	26s protease regulatory subunit 8 (proteasome subunit p45) (thyroid hormone receptor interacting protein 1) (trip1) (msug1 protein) (tat-binding protein homolog 10) (tbp10) (p45/sug). [source:swissprot;acc:p47210]	199.408	202.358	1.01479	
1638	serine hydroxymethyltransferase, mitochondrial precursor (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [source:swissprot;acc:p34897]	217.481	220.686	1.01474	
1639	yl-1 protein (transcription factor-like 1). [source:swissprot;acc:q15906]	197.364	194.516	1.01464	
1640	hydroxyacylglutathione hydrolase (ec 3.1.2.6) (glyoxalase ii) (glx ii). [source:swissprot;acc:q16775]	197.364	194.516	1.01464	
1641	proteasome subunit beta type 4 precursor (ec 3.4.25.1) (proteasome beta chain) (macropain beta chain) (multicatalytic endopeptidase complex beta chain) (proteasome chain 3) (hsn3) (hsbpros26). [source:swissprot;acc:p28070]	215.034	218.167	1.01457	
1642	m-phase inducer phosphatase 2 (ec 3.1.3.48) (dual specificity phosphatase cdc25b). [source:swissprot;acc:p30305]	256.531	260.269	1.01457	
1643	myofibrillogenesis regulator 1; trans-activated by hepatitis c virus core protein 2; likely ortholog of mouse brain protein 17. [source:refseq;acc:nm_022572]	197.305	194.476	1.01455	
1644	secreted modular calcium-binding protein 1. [source:refseq;acc:nm_022137]	214.149	217.256	1.01451	
1645	prefoldin subunit 1. [source:swissprot;acc:o60925]	214.149	217.256	1.01451	
1646	secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [source:refseq;acc:nm_022138]	214.149	217.256	1.01451	
1647	choline dehydrogenase. [source:refseq;acc:nm_018397]	214.149	217.256	1.01451	
1648	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [source:swissprot;acc:p46597]	222.928	219.745	1.01448	
1649	neurotrypsin precursor (ec 3.4.21.-) (motopsin) (leydin). [source:swissprot;acc:p56730]	215.942	219.062	1.01445	
1650	ring finger protein 44. [source:refseq;acc:nm_014901]	215.942	219.062	1.01445	
1651	phosphatidylinositol 3-kinase regulatory alpha subunit (pi3-kinase p85-alpha subunit) (ptdins-3-kinase p85-alpha) (pi3k). [source:swissprot;acc:p27986]	215.942	219.062	1.01445	
1652	ring finger protein 38. [source:refseq;acc:nm_022781]	215.942	219.062	1.01445	
1653	phosphatidylinositol 3-kinase regulatory gamma subunit (pi3-kinase p85-gamma subunit) (ptdins-3-kinase p85-gamma) (p55pik). [source:swissprot;acc:q92569]	215.942	219.062	1.01445	
1654	sterol regulatory element binding protein cleavage-activating protein (srebp cleavage-activating protein) (scap). [source:swissprot;acc:q12770]	215.942	219.062	1.01445	
1655	atp synthase beta chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p06576]	215.942	219.062	1.01445	
1656	phosphatidylinositol 3-kinase regulatory beta subunit (pi3-kinase p85-beta subunit) (ptdins-3-kinase p85-beta). [source:swissprot;acc:o00459]	215.942	219.062	1.01445	
1657	cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [source:refseq;acc:nm_007006]	216.195	219.314	1.01443	
1658	atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p25705]	214.826	217.925	1.01443	
1659	28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [source:swissprot;acc:q9nvs2]	214.826	217.925	1.01443	
1660	early endosome antigen 1, 162kd; early endosome-associated protein. [source:refseq;acc:nm_003566]	231.933	228.654	1.01434	
1661	adenylosuccinate synthase-like 1. [source:refseq;acc:nm_152328]	201.551	204.437	1.01432	
1662	transcription factor-like protein mrgx (morf-related gene x protein) (mortality factor 4-like 2) (msl3-2 protein). [source:swissprot;acc:q15014]	231.747	228.477	1.01431	
1663	tryptophan 2,3-dioxygenase (ec 1.13.11.11) (tryptophan pyrrolase) (tryptophanase) (tryptophan oxygenase) (tryptamin 2,3-dioxygenase) (trpo). [source:swissprot;acc:p48775]	215.26	218.335	1.01429	
1664	transcription factor-like protein morf4 (mortality factor 4) (cellular senescence-related protein 1) (sen1). [source:swissprot;acc:q9y690]	231.74	228.484	1.01425	
1665	adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [source:swissprot;acc:p30520]	201.564	204.433	1.01423	
1666	karyopherin beta 2b, transportin; importin 3. [source:refseq;acc:nm_013433]	215.612	218.679	1.01422	
1667	cathepsin b precursor (ec 3.4.22.1) (cathepsin b1) (app secretase). [source:swissprot;acc:p07858]	211.898	214.898	1.01416	
1668	survival motor neuron protein (component of gems 1) (gemin1). [source:swissprot;acc:q16637]	231.729	228.496	1.01415	
1669	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [source:swissprot;acc:p15154]	231.729	228.496	1.01415	
1670	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [source:swissprot;acc:o14658]	231.729	228.496	1.01415	
1671	nucleoporin 54kda; nucleoporin p54. [source:refseq;acc:nm_017426]	231.729	228.496	1.01415	
1672	ras-related c3 botulinum toxin substrate 2 (p21-rac2) (small g protein) (gx). [source:swissprot;acc:p15153]	231.729	228.496	1.01415	
1673	dna replication licensing factor mcm5 (cdc46 homolog) (p1-cdc46). [source:swissprot;acc:p33992]	231.729	228.496	1.01415	
1674	survival of motor neuron protein-interacting protein 1 (smn- interacting protein 1) (component of gems 2) (gemin2). [source:swissprot;acc:o14893]	231.729	228.496	1.01415	

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/