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 2258 to 2307 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1129	SIX2	homeobox protein six2 (sine oculis homeobox homolog 2). [swissprot;acc:q9npc8]	High confidence	221.285	215.401	1.02732
1130	PA2G4	proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [swissprot;acc:q9uq80]			215.4
	RBMS1	single-stranded dna-binding protein mssp-1 (rna binding motif, single- stranded interacting protein 1). [swissprot;acc:p29558]	Low confidence	201.739	197.104	1.02352
1131	no value	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]	High confidence	218.484	212.675	1.02731
	MCM3	dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205]	Low confidence	202.3	197.652	1.02352
1132	API5	apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595]	High confidence	218.484	212.675	1.02731
	MTRF1L	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]	Low confidence	202.601	197.948	1.02351
1133	RBMS3	rna binding motif, single stranded interacting protein; rna-binding protein; rna binding motif, single stranded interacting protein 3. [refseq;acc:nm_014483]		201.733	197.101	1.0235
	SEC13	sec13-related protein. [swissprot;acc:p55735]	High confidence	218.484	212.675	1.02731
1134	ATP6V1G3	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]
	RBMS2	rna binding motif, single stranded interacting protein 2. [refseq;acc:nm_002898]	Low confidence	201.731	197.1	1.0235
1135	no value	small edrk-rich factor 1a. [swissprot;acc:o75920]		205.049	200.342	1.02349
	ATP6V1B2	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]	High confidence	218.484	212.675	1.02731
1136	NEDD9	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]	Low confidence	201.753	197.123	1.02349
	SEC31A	yeast sec31p homolog. [refseq;acc:nm_014933]	High confidence	218.484	212.675	1.02731
1137	ATP6V1G1	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]
	CDC25B	m-phase inducer phosphatase 2 (ec 3.1.3.48) (dual specificity phosphatase cdc25b). [swissprot;acc:p30305]	Low confidence	207.226	202.469	1.02349
1138	ATP6V1E1	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]	High confidence	218.484	212.675	1.02731
	PDE9A	high-affinity cgmp-specific 3',5'-cyclic phosphodiesterase 9a (ec 3.1.4.17). [swissprot;acc:o76083]	Low confidence	187.917	183.608	1.02347
1139	GDAP1L1	ganglioside-induced differentiation-associated protein 1-like 1. [refseq;acc:nm_024034]	High confidence	218.484	212.675	1.02731
	SLC36A1	solute carrier family 36 member 1; proton / amino acid symporter; lysosomal amino acid transporter 1. [refseq;acc:nm_078483]	Low confidence	187.917	183.608	1.02347
1140	ASNS	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]		187.8	183.496	1.02346
	DDX39	dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804]	High confidence	218.484	212.675	1.02731
1141	GDAP1	ganglioside-induced differentiation-associated protein 1. [refseq;acc:nm_018972]
	HIST1H1B	histone h1.5 (histone h1a). [swissprot;acc:p16401]	Low confidence	198.047	193.51	1.02345
1142	ATP6V1D	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]	High confidence	218.484	212.675	1.02731
	HIST1H1E	histone h1.4 (histone h1b). [swissprot;acc:p10412]	Low confidence	198.05	193.513	1.02345
1143	HIST1H1A	histone h1.1. [swissprot;acc:q02539]		198.054	193.517	1.02344
	SEC31B	secretory pathway component sec31b-1. [refseq;acc:nm_015490]	High confidence	218.484	212.675	1.02731
1144	ATP6V1H	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]
	CSDA	dna-binding protein a (cold shock domain protein a) (single-strand dna binding protein nf-gmb). [swissprot;acc:p16989]	Low confidence	203.991	199.319	1.02344
1145	ATP6V1F	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]	High confidence	218.481	212.675	1.0273
	LSM3	u6 snrna-associated sm-like protein lsm3 (mds017). [swissprot;acc:q9y4z1]	Low confidence	201.836	197.216	1.02343
1146	ATP6V1B1	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]	High confidence	218.483	212.676	1.0273
	MCM7	dna replication licensing factor mcm7 (cdc47 homolog) (p1.1-mcm3). [swissprot;acc:p33993]	Low confidence	201.363	196.754	1.02343
1147	INPP5E	inositol polyphosphate-5-phosphatase; phosphatidylinositol polyphosphate 5-phosphatase type iv; phosphatidylinositol (4,5) bisphosphate 5-phosphatase. [refseq;acc:nm_019892]		198.92	194.368	1.02342
	PEX14	peroxisomal membrane protein pex14 (peroxin-14) (peroxisomal membrane anchor protein pex14) (pts1 receptor docking protein). [swissprot;acc:o75381]	High confidence	208.651	203.109	1.02729
1148	no value	ubiquitin. [swissprot;acc:p02248]		209.061	203.518	1.02724
	DDX18	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	Low confidence	200.371	195.785	1.02342
1149	BYSL	bystin. [swissprot;acc:q13895]	High confidence	239.505	233.185	1.0271
	SH3GL3	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	Low confidence	203.665	199.007	1.02341
1150	SEPT1	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]		178.634	174.552	1.02339
	SNX1	sorting nexin 1. [swissprot;acc:q13596]	High confidence	209.868	215.522	1.02694
1151	MTX1	metaxin 1. [swissprot;acc:q13505]		199.552	204.925	1.02693
	NME2P1	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Low confidence	199.769	195.206	1.02338
1152	EPS8L1	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]	High confidence	221.939	216.143	1.02682
	TAF11	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [swissprot;acc:q15544]	Low confidence	197.295	192.791	1.02336
1153	EPS8	epidermal growth factor receptor kinase substrate eps8. [swissprot;acc:q12929]	High confidence	221.93	216.146	1.02676
	NME2	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]	Low confidence	199.769	195.209	1.02336
1154	OTX2	homeobox protein otx2. [swissprot;acc:p32243]		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.