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	red	Filtered	green	network_comparison

Results: HTML CSV LaTeX

Showing element 2225 to 2274 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1113	CYB5R2	cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229]	Low confidence	200.326	195.686	1.02371
	GADD45G	growth arrest and dna-damage-inducible protein gadd45 gamma (cytokine responsive protein cr6). [swissprot;acc:o95257]	High confidence	251.863	258.829	1.02766
1114	GADD45A	growth arrest and dna-damage-inducible protein gadd45 alpha (dna- damage inducible transcript 1) (ddit1). [swissprot;acc:p24522]
	SLC7A3	solute carrier family 7 (cationic amino acid transporter, y+ system), member 3. [refseq;acc:nm_032803]	Low confidence	200.679	196.033	1.0237
1115	HNF4A	hepatocyte nuclear factor 4-alpha (hnf-4-alpha) (transcription factor hnf-4) (transcription factor 14). [swissprot;acc:p41235]	High confidence	251.863	258.829	1.02766
	SLC7A2	low-affinity cationic amino acid transporter-2 (cat-2) (cat2). [swissprot;acc:p52569]	Low confidence	200.679	196.033	1.0237
1116	DUS1L	pp3111 protein. [refseq;acc:nm_022156]		203.007	198.316	1.02365
	GADD45B	growth arrest and dna-damage-inducible protein gadd45 beta (negative growth-regulatory protein myd118) (myeloid differentiation primary response protein myd118). [swissprot;acc:o75293]	High confidence	251.863	258.829	1.02766
1117	NUCB1	nucleobindin 1 precursor (calnuc). [swissprot;acc:q02818]	Low confidence	211.871	216.875	1.02362
	NXF5	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]	High confidence	168.989	164.46	1.02754
1118	NXF3	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5]		168.995	164.467	1.02753
	SLU7	step ii splicing factor slu7. [refseq;acc:nm_006425]	Low confidence	187.49	183.168	1.0236
1119	ATP6V0A2	vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487]	High confidence	218.528	212.676	1.02752
	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	Low confidence	201.761	197.111	1.02359
1120	ASNSD1	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]		201.621	196.976	1.02358
	ATP6V0A4	atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	High confidence	218.528	212.676	1.02752
1121	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]		218.529
	RHBG	rhesus blood group, b glycoprotein; rh type b glycoprotein. [refseq;acc:nm_020407]	Low confidence	201.247	196.611	1.02358
1122	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]		201.537	196.894
	TCIRG1	vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488]	High confidence	218.527	212.676	1.02751
1123	ATP6V1A	vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]	Low confidence	201.621	196.976	1.02358
	NXF1	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [swissprot;acc:q9ubu9]	High confidence	169.031	164.507	1.0275
1124	NPEPPS	puromycin-sensitive aminopeptidase (ec 3.4.11.-) (psa). [swissprot;acc:p55786]	Low confidence	201.395	196.76	1.02356
	PRDX5	peroxiredoxin 5, mitochondrial precursor (prx-v) (peroxisomal antioxidant enzyme) (plp) (thioredoxin peroxidase pmp20) (antioxidant enzyme b166) (aoeb166) (tpx type vi) (liver tissue 2d-page spot 71b) (alu co-repressor 1) (sbbi10). [swissprot;acc:p30044]	High confidence	207.553	213.256	1.02748
1125	no value	dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5]		204.404	210.022
	WDR12	wd-repeat protein 12 (ytm1 homolog). [swissprot;acc:q9gzl7]	Low confidence	202.352	197.698	1.02354
1126	ATP6V0D2	atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	High confidence	218.487	212.656	1.02742
	MTRF1	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	Low confidence	202.607	197.948	1.02354
1127	no value	nucleolar protein nop5 (nucleolar protein 5) (nop58) (hspc120). [swissprot;acc:q9y2x3]	High confidence	239.219	232.837	1.02741
	SLC36A4	proton/amino acid transporter 4. [refseq;acc:nm_152313]	Low confidence	187.77	183.453	1.02353
1128	SIX1	homeobox protein six1 (sine oculis homeobox homolog 1). [swissprot;acc:q15475]	High confidence	221.286	215.399	1.02733
	XPO6	ran binding protein ranbp20. [sptrembl;acc:q96qu8]	Low confidence	208.459	203.667	1.02353
1129	OLA1	putative gtp-binding protein ptd004 (pro2455). [swissprot;acc:q9ntk5]		202.19	197.541
	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

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.