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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Rank Gene Hugo 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
Hugo
Value Type
description
red
green
network_comparison
695 SGPL1 Squared sphingosine-1-phosphate lyase 1; sphingosine-1-phosphate lyase. [refseq;acc:nm_003901] 22778.5 26693.1 1.17186
696 no value 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]
HIVEP2 Measured human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629] 7725.1 8647.74 1.11943
PYCR1 Rooted pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 68.433 73.4502 1.07332
SFRS18 Ranked sr rich protein. [refseq;acc:nm_032870] 225.293 213.64 1.05455
697 FTH1 ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794] 220.444 209.113 1.05419
KCNA4 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
OAT Squared ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181] 22778.5 26693.1 1.17186
SH3GL2 Measured sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962] 7105.27 7953.71 1.11941
698 ACP1 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
ARMET Measured armet protein precursor (arginine-rich protein). [swissprot;acc:p55145] 7101.95 7949.85 1.11939
CSTF3 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
FTMT Ranked mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478] 220.437 209.118 1.05413
699 ATXN2L Rooted ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245] 57.0263 61.1552 1.0724
CREG2 Ranked cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] 220.438 209.118 1.05413
HAT1 Squared histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 18148.6 21253.1 1.17106
HDC Measured histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113] 7101.94 7949.84 1.11939
700 no value 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
Rooted ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 57.0263 61.1552 1.0724
LSM1 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
701 ATP6V0D2 atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565] 25852.2 30258.6 1.17045
CSE1L Measured importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 7802.31 8731.82 1.11913
DLGAP1 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
RAB37 Rooted ras-related protein rab-37. [swissprot;acc:q96ax2] 51.4945 48.0189 1.07238
702 AHCYL1 Ranked putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] 220.438 209.118 1.05413
ATP6V0C Squared vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449] 25114 29386 1.1701
RAB26 Rooted ras-related protein rab-26. [swissprot;acc:q9ulw5] 51.4945 48.0189 1.07238
SH3GL3 Measured sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963] 7067.46 7909.27 1.11911
703 no value nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 6912.56 7735.12 1.11899
KIAA0430 Ranked limkain b1. [refseq;acc:nm_019081] 220.438 209.118 1.05413
POLR2C 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
SGCZ Squared sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167] 25114 29386 1.1701
704 no value 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
ACBD3 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
STX10 Rooted syntaxin 10 (syn10). [swissprot;acc:o60499] 57.2102 53.3508 1.07234
705 CREG1 Ranked cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851] 220.438 209.118 1.05413
DIRAS1 Measured small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] 6912.09 7734.41 1.11897
SGCD Squared delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629] 25114 29386 1.1701
STX6 Rooted syntaxin 6. [swissprot;acc:o43752] 57.2202 53.3639 1.07226
706 DIRAS2 Measured di-ras2. [refseq;acc:nm_017594] 6912.08 7734.39 1.11897
DLGAP3 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
MARCH8 Squared cellular modulator of immune recognition. [refseq;acc:nm_145021] 25114 29386 1.1701
SRP68 Rooted signal recognition particle 68 kda protein (srp68). [swissprot;acc:q9uhb9] 60.6572 64.9858 1.07136
707 ATP6V0B Squared vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437] 25114 29386 1.1701
KNG1 Ranked kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042] 220.438 209.118 1.05413
RPUSD2 Measured c18b11 homolog (44.9kd). [refseq;acc:nm_152260] 5317.78 5944.25 1.11781
TOMM20 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 no value Ranked disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] 220.438 209.118 1.05413

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