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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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Rank	Gene	Hugo	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 2330 to 2379 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1165	TLE3	transducin-like enhancer protein 3 (esg3). [swissprot;acc:q04726]	High confidence	219.401	213.785	1.02627
1166	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Low confidence	201.081	196.508	1.02327
	TLE2	transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725]	High confidence	219.374	213.759	1.02627
1167	EN2	homeobox protein engrailed-2 (hu-en-2). [swissprot;acc:p19622]		219.399	213.784	1.02626
	RGL1	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]	Low confidence	200.738	196.177	1.02325
1168	CXXC1	cpg binding protein (protein containing phd finger and cxxc domain 1). [swissprot;acc:q9p0u4]	High confidence	219.399	213.784	1.02626
	NOL5A	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]	Low confidence	201.212	196.641	1.02325
1169	ABT1	activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375]	High confidence	219.399	213.784	1.02626
	REXO4	xpmc2 prevents mitotic catastrophe 2 homolog; xenopus prevents mitotic catastrophe 2 homolog. [refseq;acc:nm_020385]	Low confidence	200.521	195.967	1.02324
1170	no value	cytokine-like nuclear factor n-pac. [refseq;acc:nm_032569]	High confidence	219.399	213.784	1.02626
	ATP6V0A1	vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050]	Low confidence	192.255	187.889	1.02324
1171	CFL1	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528]		201.061	196.497	1.02323
	HECW1	hect type e3 ubiquitin ligase. [refseq;acc:nm_015052]	High confidence	219.399	213.784	1.02626
1172	no value	transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724]		219.375	213.767	1.02623
	SLC30A3	zinc transporter 3 (znt-3). [swissprot;acc:q99726]	Low confidence	204.466	199.824	1.02323
1173	DPH1	candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822]	High confidence	229.243	235.246	1.02619
	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Low confidence	201.084	196.52	1.02322
1174	COPE	coatomer epsilon subunit (epsilon-coat protein) (epsilon-cop). [swissprot;acc:o14579]	High confidence	187.964	192.849	1.02599
	DIAPH3	diaphanous protein homolog 3 (diaphanous-related formin 3) (drf3) (fragment). [swissprot;acc:q9nsv4]	Low confidence	200.258	195.713	1.02322
1175	ATP6V0C	vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449]	High confidence	218.186	212.672	1.02593
	CFL2	cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]	Low confidence	201.033	196.473	1.02321
1176	DSTN	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]		201.013	196.457	1.02319
	SGCZ	sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167]	High confidence	218.186	212.672	1.02593
1177	ACBD3	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]
	SLC8A1	sodium/calcium exchanger 1 precursor (na(+)/ca(2+)-exchange protein 1). [swissprot;acc:p32418]	Low confidence	203.938	199.317	1.02318
1178	SGCD	delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629]	High confidence	218.186	212.672	1.02593
	SLC8A2	sodium/calcium exchanger 2 precursor (na(+)/ca(2+)-exchange protein 2). [swissprot;acc:q9upr5]	Low confidence	203.938	199.317	1.02318
1179	MARCH8	cellular modulator of immune recognition. [refseq;acc:nm_145021]	High confidence	218.186	212.672	1.02593
	MTFMT	methionyl-trna formyltransferase, mitochondrial precursor (ec 2.1.2.9) (mtfmt). [swissprot;acc:q96dp5]	Low confidence	201.447	196.884	1.02318
1180	ATP6V0B	vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437]	High confidence	218.186	212.672	1.02593
	SLC8A3	sodium/calcium exchanger 3 precursor (na(+)/ca(2+)-exchange protein 3) (fragment). [swissprot;acc:p57103]	Low confidence	203.938	199.317	1.02318
1181	RHAG	rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [swissprot;acc:q02094]		201.302	196.744	1.02317
	SGCG	gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326]	High confidence	218.186	212.672	1.02593
1182	KCMF1	potassium channel modulatory factor 1; potassium channel modulatory factor; differentially expressed in branching tubulogenesis 91; zinc finger, zz domain containing 1. [refseq;acc:nm_020122]	Low confidence	206.598	201.924	1.02315
	NCALD	neurocalcin delta. [swissprot;acc:p29554]	High confidence	225.104	230.931	1.02589
1183	HPCA	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076]		225.103	230.928	1.02588
	RYK	tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [swissprot;acc:p34925]	Low confidence	203.427	198.825	1.02315
1184	GIT1	arf gtpase-activating protein git1 (g protein-coupled receptor kinase- interactor 1). [swissprot;acc:q9y2x7]	High confidence	216.729	222.334	1.02586
	IRX3	iroquois-class homeodomain protein irx-3 (iroquois homeobox protein 3) (fragment). [swissprot;acc:p78415]	Low confidence	195.226	190.812	1.02313
1185	HPCAL1	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	High confidence	225.094	230.913	1.02585
	IRX5	iroquois-class homeodomain protein irx-5 (iroquois homeobox protein 5) (irx-2a). [swissprot;acc:p78411]	Low confidence	195.226	190.812	1.02313
1186	no value	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]	High confidence	218.402	212.904	1.02582
	IRX2	iroquois-class homeodomain protein irx-2 (iroquois homeobox protein 2) (fragment). [swissprot;acc:q9bzi1]	Low confidence	195.226	190.812	1.02313
1187	ATP6V0D1	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]	High confidence	218.402	212.904	1.02582
	IRX1	iroquois-class homeodomain protein irx-1 (iroquois homeobox protein 1) (fragment). [swissprot;acc:p78414]	Low confidence	195.226	190.812	1.02313
1188	ARL4A	adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]	High confidence	218.402	212.904	1.02582
	TBL3	transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453]	Low confidence	202.963	198.378	1.02311
1189	no value	alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652]	High confidence	209.649	204.406	1.02565
	IRX4	iroquois-class homeodomain protein irx-4 (iroquois homeobox protein 4). [swissprot;acc:p78413]	Low confidence	195.344	190.932	1.02311
1190	BLMH	bleomycin hydrolase (ec 3.4.22.40) (blm hydrolase) (bmh) (bh). [swissprot;acc:q13867]		202.963	198.378

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
- Hugo is the HGNC identifier if it exists
- 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.