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	Interaction Map	Value Type	Network Comparison Type	Filtered	green	red	network_comparison

Results: HTML CSV LaTeX

Showing element 3732 to 3781 of 12912 in total

Interaction Map  : High confidence
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Value Type	green	red	network_comparison
933	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]	Rooted	66.0328	62.3618	1.05887
934	d-3-phosphoglycerate dehydrogenase (ec 1.1.1.95) (3-pgdh). [swissprot;acc:o43175]	Squared	30074.5	26029.5	1.1554
	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]	Ranked	233.544	242.024	1.03631
	yeast sec31p homolog. [refseq;acc:nm_014933]	Rooted	66.0328	62.3618	1.05887
	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]	Measured	6195.52	5640	1.0985
935	eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [swissprot;acc:q13347]	Squared	17854.3	15461.1	1.15479
	neurotrimin precursor (hnt). [swissprot;acc:q9p121]	Measured	5946.46	5413.63	1.09842
	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	Ranked	224.372	232.473	1.03611
	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]	Rooted	66.0327	62.3617	1.05887
936	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]	Ranked	224.372	232.473	1.03611
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	Measured	6180.37	5628.21	1.09811
	trinucleotide repeat containing 15. [refseq;acc:nm_015575]	Squared	17854.3	15461.1	1.15479
	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]	Rooted	66.0328	62.3618	1.05887
937	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409]	Squared	28914	25043.9	1.15453
	nucleobindin 1 precursor (calnuc). [swissprot;acc:q02818]	Measured	6432.03	5859.25	1.09776
	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	Ranked	212.618	220.246	1.03588
	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]	Rooted	66.0297	62.3588	1.05887
938	dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692]	Measured	6432.03	5859.25	1.09776
	ganglioside-induced differentiation-associated protein 1-like 1. [refseq;acc:nm_024034]	Rooted	66.0328	62.3618	1.05887
	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189]	Squared	28913.4	25043.4	1.15453
	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	Ranked	212.618	220.246	1.03588
939	breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]		224.27	216.501
	dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804]	Rooted	66.0327	62.3617	1.05887
	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410]	Squared	28915.2	25044.9	1.15453
	nucleobindin 2 precursor (dna-binding protein nefa). [swissprot;acc:p80303]	Measured	6432.03	5859.25	1.09776
940	adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526]		6113.35	5568.96	1.09775
	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632]	Ranked	205.088	212.442	1.03586
	ganglioside-induced differentiation-associated protein 1. [refseq;acc:nm_018972]	Rooted	66.0328	62.3618	1.05887
	glycerol-3-phosphate dehydrogenase, mitochondrial precursor (ec 1.1.99.5) (gpd-m) (gpdh-m). [swissprot;acc:p43304]	Squared	28986.7	25108.4	1.15446
941	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]		30020.3	26005.2	1.1544
	caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]	Measured	5455.34	4970.21	1.09761
	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497]	Ranked	205.083	212.437	1.03586
	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]	Rooted	66.0328	62.3618	1.05887
942	cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649]	Squared	27312.6	23659.9	1.15438
	grancalcin. [swissprot;acc:p28676]	Ranked	205.088	212.442	1.03586
	phosphoglycerate kinase, testis specific (ec 2.7.2.3). [swissprot;acc:p07205]	Measured	7240.64	6597.56	1.09747
	secretory pathway component sec31b-1. [refseq;acc:nm_015490]	Rooted	66.0328	62.3618	1.05887
943	cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184]	Squared	27311.3	23659.2	1.15436
	gamma enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (neural enolase) (nse) (enolase 2). [swissprot;acc:p09104]	Measured	7241	6597.98	1.09746
	sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626]	Ranked	205.087	212.442	1.03586
	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]	Rooted	66.0327	62.3617	1.05887
944	beta enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (skeletal muscle enolase) (mse) (enolase 3). [swissprot;acc:p13929]	Measured	7241	6597.98	1.09746
	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340]	Ranked	205.083	212.437	1.03586
	tcd37 homolog; prune. [refseq;acc:nm_021222]	Squared	27311.1	23659.1	1.15436
	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]	Rooted	66.0323	62.3614	1.05886
945	alpha enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (non- neural enolase) (nne) (enolase 1) (phosphopyruvate hydratase). [swissprot;acc:p06733]	Measured	7241	6597.98	1.09746
	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]	Ranked	205.085	212.44	1.03586
	cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348]	Squared	27310.2	23658.7	1.15434
	vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487]	Rooted	66.0815	62.409	1.05885
946	cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623]	Squared	27309.8	23658.5	1.15433

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.