Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2780 to 2829 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
695 Rooted potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470] 63.17 67.8116 1.07348
696 Measured human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] 7725.1 8647.74 1.11943
Ranked sr rich protein. [refseq;acc:nm_032870] 225.293 213.64 1.05455
Squared 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 22778.5 26693.1 1.17186
Rooted pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 68.433 73.4502 1.07332
697 Measured sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962] 7105.27 7953.71 1.11941
Ranked ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794] 220.444 209.113 1.05419
Squared ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181] 22778.5 26693.1 1.17186
Rooted potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459] 63.1944 67.8162 1.07314
698 Measured armet protein precursor (arginine-rich protein). [swissprot;acc:p55145] 7101.95 7949.85 1.11939
Ranked mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478] 220.437 209.118 1.05413
Squared red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [swissprot;acc:p24666] 17850.2 20913.9 1.17163
Rooted cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] 128.909 120.173 1.0727
699 Measured histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113] 7101.94 7949.84 1.11939
Ranked cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] 220.438 209.118 1.05413
Squared histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 18148.6 21253.1 1.17106
Rooted ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245] 57.0263 61.1552 1.0724
700 Measured 40s ribosomal protein s28. [swissprot;acc:p25112] 7161.14 8015.92 1.11936
Ranked dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6] 220.438 209.118 1.05413
Squared u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116] 19072.5 22327.5 1.17066
Rooted ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 57.0263 61.1552 1.0724
701 Measured importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 7802.31 8731.82 1.11913
Ranked disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] 220.438 209.118 1.05413
Squared atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565] 25852.2 30258.6 1.17045
Rooted ras-related protein rab-37. [swissprot;acc:q96ax2] 51.4945 48.0189 1.07238
702 Measured sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963] 7067.46 7909.27 1.11911
Ranked putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] 220.438 209.118 1.05413
Squared vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449] 25114 29386 1.1701
Rooted ras-related protein rab-26. [swissprot;acc:q9ulw5] 51.4945 48.0189 1.07238
703 Measured nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 6912.56 7735.12 1.11899
Ranked limkain b1. [refseq;acc:nm_019081] 220.438 209.118 1.05413
Squared sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167] 25114 29386 1.1701
Rooted dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387] 51.4945 48.0189 1.07238
704 Measured alpha-nac protein. [sptrembl;acc:q9h009] 6912.27 7734.68 1.11898
Ranked putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2] 220.438 209.118 1.05413
Squared golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735] 25114 29386 1.1701
Rooted syntaxin 10 (syn10). [swissprot;acc:o60499] 57.2102 53.3508 1.07234
705 Measured small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] 6912.09 7734.41 1.11897
Ranked cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] 220.438 209.118 1.05413
Squared delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629] 25114 29386 1.1701
Rooted syntaxin 6. [swissprot;acc:o43752] 57.2202 53.3639 1.07226
706 Measured di-ras2. [refseq;acc:nm_017594] 6912.08 7734.39 1.11897
Ranked disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886] 220.438 209.118 1.05413
Squared cellular modulator of immune recognition. [refseq;acc:nm_145021] 25114 29386 1.1701
Rooted signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9] 60.6572 64.9858 1.07136
707 Measured c18b11 homolog (44.9kd). [refseq;acc:nm_152260] 5317.78 5944.25 1.11781
Ranked kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042] 220.438 209.118 1.05413
Squared vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437] 25114 29386 1.1701
Rooted mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388] 74.8348 80.1352 1.07083
708 Measured z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24] 5317.78 5944.25 1.11781

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.
- http://analysis.yellowcouch.org/