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

Results: HTML CSV LaTeX

Showing element 2258 to 2307 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
1129	putative gtp-binding protein ptd004 (pro2455). [swissprot;acc:q9ntk5]	OLA1	Low confidence	202.19	197.541	1.02353
1130	proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [swissprot;acc:q9uq80]	PA2G4	High confidence	221.285	215.4	1.02732
	single-stranded dna-binding protein mssp-1 (rna binding motif, single- stranded interacting protein 1). [swissprot;acc:p29558]	RBMS1	Low confidence	201.739	197.104	1.02352
1131	dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205]	MCM3		202.3	197.652
	vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670]	no value	High confidence	218.484	212.675	1.02731
1132	apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595]	API5
	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]	MTRF1L	Low confidence	202.601	197.948	1.02351
1133	rna binding motif, single stranded interacting protein; rna-binding protein; rna binding motif, single stranded interacting protein 3. [refseq;acc:nm_014483]	RBMS3		201.733	197.101	1.0235
	sec13-related protein. [swissprot;acc:p55735]	SEC13	High confidence	218.484	212.675	1.02731
1134	rna binding motif, single stranded interacting protein 2. [refseq;acc:nm_002898]	RBMS2	Low confidence	201.731	197.1	1.0235
	vacuolar atp synthase subunit g 3 (ec 3.6.3.14) (v-atpase g subunit 3) (vacuolar proton pump g subunit 3) (v-atpase 13 kda subunit 3). [swissprot;acc:q96lb4]	ATP6V1G3	High confidence	218.484	212.675	1.02731
1135	small edrk-rich factor 1a. [swissprot;acc:o75920]	no value	Low confidence	205.049	200.342	1.02349
	vacuolar atp synthase subunit b, brain isoform (ec 3.6.3.14) (v-atpase b2 subunit) (vacuolar proton pump b isoform 2) (endomembrane proton pump 58 kda subunit) (ho57). [swissprot;acc:p21281]	ATP6V1B2	High confidence	218.484	212.675	1.02731
1136	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	NEDD9	Low confidence	201.753	197.123	1.02349
	yeast sec31p homolog. [refseq;acc:nm_014933]	SEC31A	High confidence	218.484	212.675	1.02731
1137	m-phase inducer phosphatase 2 (ec 3.1.3.48) (dual specificity phosphatase cdc25b). [swissprot;acc:p30305]	CDC25B	Low confidence	207.226	202.469	1.02349
	vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348]	ATP6V1G1	High confidence	218.484	212.675	1.02731
1138	high-affinity cgmp-specific 3',5'-cyclic phosphodiesterase 9a (ec 3.1.4.17). [swissprot;acc:o76083]	PDE9A	Low confidence	187.917	183.608	1.02347
	vacuolar atp synthase subunit e (ec 3.6.3.14) (v-atpase e subunit) (vacuolar proton pump e subunit) (v-atpase 31 kda subunit) (p31). [swissprot;acc:p36543]	ATP6V1E1	High confidence	218.484	212.675	1.02731
1139	ganglioside-induced differentiation-associated protein 1-like 1. [refseq;acc:nm_024034]	GDAP1L1
	solute carrier family 36 member 1; proton / amino acid symporter; lysosomal amino acid transporter 1. [refseq;acc:nm_078483]	SLC36A1	Low confidence	187.917	183.608	1.02347
1140	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	ASNS		187.8	183.496	1.02346
	dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804]	DDX39	High confidence	218.484	212.675	1.02731
1141	ganglioside-induced differentiation-associated protein 1. [refseq;acc:nm_018972]	GDAP1
	histone h1.5 (histone h1a). [swissprot;acc:p16401]	HIST1H1B	Low confidence	198.047	193.51	1.02345
1142	histone h1.4 (histone h1b). [swissprot;acc:p10412]	HIST1H1E		198.05	193.513
	vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase 28 kda accessory protein). [swissprot;acc:q9y5k8]	ATP6V1D	High confidence	218.484	212.675	1.02731
1143	histone h1.1. [swissprot;acc:q02539]	HIST1H1A	Low confidence	198.054	193.517	1.02344
	secretory pathway component sec31b-1. [refseq;acc:nm_015490]	SEC31B	High confidence	218.484	212.675	1.02731
1144	dna-binding protein a (cold shock domain protein a) (single-strand dna binding protein nf-gmb). [swissprot;acc:p16989]	CSDA	Low confidence	203.991	199.319	1.02344
	vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase 50/57 kda subunits) (vacuolar proton pump subunit sfd) (cgi-11). [swissprot;acc:q9ui12]	ATP6V1H	High confidence	218.484	212.675	1.02731
1145	u6 snrna-associated sm-like protein lsm3 (mds017). [swissprot;acc:q9y4z1]	LSM3	Low confidence	201.836	197.216	1.02343
	vacuolar atp synthase subunit f (ec 3.6.3.14) (v-atpase f subunit) (vacuolar proton pump f subunit) (v-atpase 14 kda subunit). [swissprot;acc:q16864]	ATP6V1F	High confidence	218.481	212.675	1.0273
1146	dna replication licensing factor mcm7 (cdc47 homolog) (p1.1-mcm3). [swissprot;acc:p33993]	MCM7	Low confidence	201.363	196.754	1.02343
	vacuolar atp synthase subunit b, kidney isoform (ec 3.6.3.14) (v- atpase b1 subunit) (vacuolar proton pump b isoform 1) (endomembrane proton pump 58 kda subunit). [swissprot;acc:p15313]	ATP6V1B1	High confidence	218.483	212.676	1.0273
1147	inositol polyphosphate-5-phosphatase; phosphatidylinositol polyphosphate 5-phosphatase type iv; phosphatidylinositol (4,5) bisphosphate 5-phosphatase. [refseq;acc:nm_019892]	INPP5E	Low confidence	198.92	194.368	1.02342
	peroxisomal membrane protein pex14 (peroxin-14) (peroxisomal membrane anchor protein pex14) (pts1 receptor docking protein). [swissprot;acc:o75381]	PEX14	High confidence	208.651	203.109	1.02729
1148	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	DDX18	Low confidence	200.371	195.785	1.02342
	ubiquitin. [swissprot;acc:p02248]	no value	High confidence	209.061	203.518	1.02724
1149	bystin. [swissprot;acc:q13895]	BYSL		239.505	233.185	1.0271
	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	SH3GL3	Low confidence	203.665	199.007	1.02341
1150	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	SEPT1		178.634	174.552	1.02339
	sorting nexin 1. [swissprot;acc:q13596]	SNX1	High confidence	209.868	215.522	1.02694
1151	metaxin 1. [swissprot;acc:q13505]	MTX1		199.552	204.925	1.02693
	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	NME2P1	Low confidence	199.769	195.206	1.02338
1152	epidermal growth factor receptor pathway substrate 8-like protein 1 isoform c; epidermal growth factor receptor pathway substrate 8-related protein 1; eps8-related protein 1. [refseq;acc:nm_139204]	EPS8L1	High confidence	221.939	216.143	1.02682
	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [swissprot;acc:q15544]	TAF11	Low confidence	197.295	192.791	1.02336
1153	epidermal growth factor receptor kinase substrate eps8. [swissprot;acc:q12929]	EPS8	High confidence	221.93	216.146	1.02676
	nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531]	NME2	Low confidence	199.769	195.209	1.02336
1154	homeobox protein otx2. [swissprot;acc:p32243]	OTX2		205.64	200.948	1.02335

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.