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

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	description	red	green	network_comparison
1088	Subtracted	pxr2b protein. [refseq;acc:nm_016559]	212.945	207.109	5.836
1089	Divided	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	121.428	125.004	1.02945
	Subtracted	atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	218.487	212.656	5.831
1090	Divided	similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9]	226.218	232.88	1.02945
	Subtracted	neurocalcin delta. [swissprot;acc:p29554]	225.104	230.931	5.827
1091	Divided	block 23. [sptrembl;acc:q8nhw5]	226.205	232.858	1.02941
	Subtracted	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076]	225.103	230.928	5.825
1092	Divided	60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	226.203	232.855	1.02941
	Subtracted	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	225.094	230.913	5.819
1093	Divided	coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [swissprot;acc:p53621]	177.432	182.647	1.02939
	Subtracted	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]	218.484	212.675	5.809
1094	Divided	annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073]	219.655	213.385	1.02938
	Subtracted	apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595]	218.484	212.675	5.809
1095	Divided	mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620]	213.552	207.463	1.02935
	Subtracted	sec13-related protein. [swissprot;acc:p55735]	218.484	212.675	5.809
1096	Divided	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9]	212.345	206.339	1.02911
	Subtracted	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]	218.484	212.675	5.809
1097	Divided	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]	209.123	203.208	1.02911
	Subtracted	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]	218.484	212.675	5.809
1098	Divided	adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]	217.323	211.185	1.02906
	Subtracted	yeast sec31p homolog. [refseq;acc:nm_014933]	218.484	212.675	5.809
1099	Divided	adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677]	217.315	211.183	1.02904
	Subtracted	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]	218.484	212.675	5.809
1100	Divided	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194]	209.052	203.183	1.02889
	Subtracted	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]	218.484	212.675	5.809
1101	Divided	lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [swissprot;acc:q15046]	220.291	226.584	1.02857
	Subtracted	ganglioside-induced differentiation-associated protein 1-like 1. [refseq;acc:nm_024034]	218.484	212.675	5.809
1102	Divided	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	229.442	235.974	1.02847
	Subtracted	dead (asp-glu-ala-asp) box polypeptide 39 isoform 1; nuclear rna helicase, decd variant of dead box family. [refseq;acc:nm_005804]	218.484	212.675	5.809
1103	Divided	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	229.441	235.972	1.02846
	Subtracted	ganglioside-induced differentiation-associated protein 1. [refseq;acc:nm_018972]	218.484	212.675	5.809
1104	Divided	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8]	231.922	238.486	1.0283
	Subtracted	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]	218.484	212.675	5.809
1105	Divided	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]	191.139	185.882	1.02828
	Subtracted	secretory pathway component sec31b-1. [refseq;acc:nm_015490]	218.484	212.675	5.809
1106	Divided	pxr2b protein. [refseq;acc:nm_016559]	212.945	207.109	1.02818
	Subtracted	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]	218.484	212.675	5.809
1107	Divided	serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [swissprot;acc:o15270]	204.603	210.324	1.02796
	Subtracted	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]	218.483	212.676	5.807
1108	Divided	interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167]	218.006	212.119	1.02775
	Subtracted	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]	218.481	212.675	5.806
1109	Divided	translationally controlled tumor protein (tctp) (p23) (histamine- releasing factor) (hrf). [swissprot;acc:p13693]	218.098	212.209	1.02775
	Subtracted	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]	221.939	216.143	5.796
1110	Divided	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161]	216.78	222.782	1.02769
	Subtracted	ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6]	159.13	164.917	5.787
1111	Divided	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	217.99	212.123	1.02766
	Subtracted	basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414]	159.165	164.951	5.786
1112	Divided	hepatocyte nuclear factor 4-gamma (hnf-4-gamma). [swissprot;acc:q14541]	251.863	258.829	1.02766
	Subtracted	epidermal growth factor receptor kinase substrate eps8. [swissprot;acc:q12929]	221.93	216.146	5.784
1113	Divided	growth arrest and dna-damage-inducible protein gadd45 gamma (cytokine responsive protein cr6). [swissprot;acc:o95257]	251.863	258.829	1.02766

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.