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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Gene Rank description Value Type Interaction Map Filtered Network Comparison Type network_comparison green red
Results: HTML CSV LaTeX Showing element 8241 to 8290 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Interaction Map
Network Comparison Type
network_comparison
green
red
2061 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] High confidence Subtracted 317.05 7263.87 6946.82
adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382] Divided 1.0564 5865.84 5552.69
dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03] Low confidence Subtracted 254.25 8246.58 7992.33
moesin (membrane-organizing extension spike protein). [swissprot;acc:p26038] Divided 1.03188 8123.84 7872.85
2062 adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843] High confidence 1.0564 5865.85 5552.7
adaptor-associated kinase 1. [refseq;acc:nm_014911] Low confidence Subtracted 254.24 8358.61 8104.37
rna-binding protein 9 (rna binding motif protein 9) (hexaribonucleotide binding protein 2) (repressor of tamoxifen transcriptional activity). [swissprot;acc:o43251] High confidence 315.98 6092.77 5776.79
ubiquitin-like protein smt3a. [swissprot;acc:p55854] Low confidence Divided 1.03186 8365.24 8106.92
2063 delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629] 8025.43 7777.62
mitochondrial translational release factor 1-like. [refseq;acc:nm_019041] Subtracted 254.24 8264.54 8010.3
swi/snf-related matrix-associated actin-dependent regulator of chromatin c1; mammalian chromatin remodeling complex brg1-associated factor 155; swi/snf complex 155 kda subunit; chromatin remodeling complex baf155 subunit. [refseq;acc:nm_003074] High confidence Divided 1.05635 5952.14 5634.63
williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645] Subtracted 315.51 5486.96 5171.45
2064 adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567] Divided 1.05632 5861.31 5548.79
pericentrin 1; frount; nucleoporin nup75. [refseq;acc:nm_024844] Low confidence 1.03186 7870.14 7627.15
peroxisomal membrane protein pex14 (peroxin-14) (peroxisomal membrane anchor protein pex14) (pts1 receptor docking protein). [swissprot;acc:o75381] Subtracted 254.16 8254.12 7999.96
williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] High confidence 315.51 5486.96 5171.45
2065 60s ribosomal protein l35. [swissprot;acc:p42766] Divided 1.05631 3410.23 3602.25
sin3 associated polypeptide p18 (2hor0202). [swissprot;acc:o00422] Low confidence Subtracted 254.15 8072.86 7818.71
transcription termination factor, rna polymerase ii; lodestar protein. [refseq;acc:nm_003594] Divided 1.03186 7870.14 7627.15
williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158] High confidence Subtracted 315.51 5486.96 5171.45
2066 ataxin 2-binding protein. [swissprot;acc:q9nwb1] 315.49 6093.65 5778.16
conserved oligomeric golgi complex component 1. [swissprot;acc:q8wtw3] Low confidence Divided 1.03184 8425.81 8165.8
protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Subtracted 254.09 8344.97 8090.88
similar to glucosamine-phosphate n-acetyltransferase (hypothetical protein flj33258). [sptrembl;acc:q96ek6] High confidence Divided 1.05622 6213.34 5882.61
2067 15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] Low confidence 1.03184 8425.81 8165.8
28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3] High confidence Subtracted 315.37 5510.67 5195.3
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] Divided 1.05616 3411.18 3602.75
nag14 protein. [refseq;acc:nm_022143] Low confidence Subtracted 254.09 8344.97 8090.88
2068 hyaluronan synthase 2 (ec 2.4.1.212) (hyaluronate synthase 2) (hyaluronic acid synthase 2) (ha synthase 2). [swissprot;acc:q92819] High confidence 315.37 5706.64 5391.27
mitochondrial ribosomal protein l2. [refseq;acc:nm_015950] Divided 1.05616 3411.17 3602.75
peptide deformylase, mitochondrial precursor (ec 3.5.1.88) (pdf) (polypeptide deformylase). [swissprot;acc:q9hbh1] Low confidence 1.03184 8425.81 8165.8
ubiquitin carboxyl-terminal hydrolase 5 (ec 3.1.2.15) (ubiquitin thiolesterase 5) (ubiquitin-specific processing protease 5) (deubiquitinating enzyme 5) (isopeptidase t). [swissprot;acc:p45974] Subtracted 254.04 8175.88 7921.84
2069 dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] High confidence Divided 1.05613 4892.66 4632.65
hyaluronan synthase 1 (ec 2.4.1.212) (hyaluronate synthase 1) (hyaluronic acid synthase 1) (ha synthase 1) (huhas1). [swissprot;acc:q92839] Subtracted 315.37 5706.64 5391.27
scratch; scratch 1. [refseq;acc:nm_031309] Low confidence Divided 1.03183 8248.39 7993.96
zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5] Subtracted 254.02 7998.74 7744.72
2070 cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294] 7873.4 7619.38
hyaluronan synthase 3 (ec 2.4.1.212) (hyaluronate synthase 3) (hyaluronic acid synthase 3) (ha synthase 3). [swissprot;acc:o00219] High confidence 315.37 5706.64 5391.27
splicing factor, proline-and glutamine-rich (polypyrimidine tract- binding protein-associated splicing factor) (ptb-associated splicing factor) (psf) (dna-binding p52/p100 complex, 100 kda subunit). [swissprot;acc:p23246] Divided 1.05607 9638.08 10178.5
tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [swissprot;acc:p34925] Low confidence 1.03182 8138.33 7887.35
2071 28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8] High confidence 1.05592 6797.24 6437.24
involucrin. [swissprot;acc:p07476] Low confidence 1.03182 8448.55 8188.03
sh3 domain-binding glutamic acid-rich protein (sh3bgr protein) (21- glutamic acid-rich protein) (21-garp). [swissprot;acc:p55822] High confidence Subtracted 314.6 6173.7 5859.1
timeless homolog. [refseq;acc:nm_003920] Low confidence 254.01 8284.11 8030.1
2072 adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [swissprot;acc:p55263] Divided 1.03182 8392.72 8133.86
aldo-keto reductase family 1 member c1 (ec 1.1.1.-) (trans-1,2- dihydrobenzene-1,2-diol dehydrogenase) (ec 1.3.1.20) (high-affinity hepatic bile acid-binding protein) (hbab) (chlordecone reductase homolog hakrc) (dihydrodiol dehydrogenase 2) (dd2) (20 alpha- hydroxysteroid dehydrogenase). [swissprot;acc:q04828] Subtracted 254 8361.72 8107.72
enhancer of rudimentary homolog. [swissprot;acc:q14259] High confidence Divided 1.05592 6797.24 6437.24
oxidation resistance 1. [refseq;acc:nm_181354] Subtracted 314.6 6173.7 5859.1
2073 aldo-keto reductase loopadr; aldo-keto reductase related protein. [refseq;acc:nm_031436] Low confidence 253.99 8361.72 8107.73
lats, large tumor suppressor, homolog 2; lats (large tumor suppressor, drosophila) homolog 2. [refseq;acc:nm_014572] High confidence 314.6 6173.7 5859.1

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/