MK5 Microarray Data

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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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 2325 to 2374 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
1163	adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]	Subtracted	218.402	212.904	5.498
	snare associated protein snapin. [refseq;acc:nm_012437]	Divided	220.758	215.097	1.02632
1164	2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218]	Subtracted	208.55	214.041	5.491
	transducin-like enhancer protein 4. [swissprot;acc:q04727]	Divided	219.438	213.818	1.02628
1165	caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [swissprot;acc:p55210]	Subtracted	233.942	228.46	5.482
	transducin-like enhancer protein 3 (esg3). [swissprot;acc:q04726]	Divided	219.401	213.785	1.02627
1166	apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [swissprot;acc:p42574]	Subtracted	233.942	228.46	5.482
	transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725]	Divided	219.374	213.759	1.02627
1167	homeobox protein engrailed-2 (hu-en-2). [swissprot;acc:p19622]		219.399	213.784	1.02626
	mstp028 protein. [refseq;acc:nm_031954]	Subtracted	219.042	213.6	5.442
1168	cpg binding protein (protein containing phd finger and cxxc domain 1). [swissprot;acc:q9p0u4]	Divided	219.399	213.784	1.02626
	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	Subtracted	219.03	213.604	5.426
1169	activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375]	Divided	219.399	213.784	1.02626
	tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829]	Subtracted	219.023	213.606	5.417
1170	cytokine-like nuclear factor n-pac. [refseq;acc:nm_032569]	Divided	219.399	213.784	1.02626
	polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863]	Subtracted	219.022	213.607	5.415
1171	hect type e3 ubiquitin ligase. [refseq;acc:nm_015052]	Divided	219.399	213.784	1.02626
	t-complex associated-testis-expressed 1-like (protein 91/23). [swissprot;acc:p51808]	Subtracted	173.475	178.889	5.414
1172	double-strand break repair protein mre11a (mre11 homolog 1). [swissprot;acc:p49959]
	transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724]	Divided	219.375	213.767	1.02623
1173	candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822]		229.243	235.246	1.02619
	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	Subtracted	171.341	176.746	5.405
1174	chromosome 11 open reading frame2; chromosome 11 open reading frame2. [refseq;acc:nm_013265]		214.364	219.759	5.395
	coatomer epsilon subunit (epsilon-coat protein) (epsilon-cop). [swissprot;acc:o14579]	Divided	187.964	192.849	1.02599
1175	kinesin-like protein kif13a (kinesin-like protein rbkin). [swissprot;acc:q9h1h9]	Subtracted	214.364	219.759	5.395
	vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449]	Divided	218.186	212.672	1.02593
1176	conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [swissprot;acc:q14746]	Subtracted	214.364	219.759	5.395
	sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167]	Divided	218.186	212.672	1.02593
1177	golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735]
	kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]	Subtracted	214.364	219.759	5.395
1178	delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629]	Divided	218.186	212.672	1.02593
	metaxin 1. [swissprot;acc:q13505]	Subtracted	199.552	204.925	5.373
1179	cellular modulator of immune recognition. [refseq;acc:nm_145021]	Divided	218.186	212.672	1.02593
	keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191]	Subtracted	219.356	224.723	5.367
1180	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]		210.986	216.344	5.358
	vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437]	Divided	218.186	212.672	1.02593
1181	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]	Subtracted	218.268	212.916	5.352
	gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326]	Divided	218.186	212.672	1.02593
1182	neurocalcin delta. [swissprot;acc:p29554]		225.104	230.931	1.02589
	retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338]	Subtracted	218.269	212.918	5.351
1183	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]		219.354	224.7	5.346
	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076]	Divided	225.103	230.928	1.02588
1184	arf gtpase-activating protein git1 (g protein-coupled receptor kinase- interactor 1). [swissprot;acc:q9y2x7]		216.729	222.334	1.02586
	keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]	Subtracted	219.354	224.7	5.346
1185	keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]
	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	Divided	225.094	230.913	1.02585
1186	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]		218.402	212.904	1.02582
	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]	Subtracted	219.354	224.7	5.346
1187	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2]
	vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase ac39 subunit) (v-atpase 40 kda accessory protein) (p39) (32 kda accessory protein). [swissprot;acc:p12953]	Divided	218.402	212.904	1.02582

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- 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.