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 Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 4180 to 4229 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
2090 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808] Divided 224.344 222.609 1.00779
2091 adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566] Subtracted 191.639 193.226 1.587
rna, u transporter 1; snurportin-1. [refseq;acc:nm_005701] Divided 210.052 211.679 1.00775
2092 dna-directed rna polymerases iii 12.5 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c11 subunit) (hsc11p) (hrpc11) (my010 protein). [swissprot;acc:q9y2y1] Subtracted 224.989 223.415 1.574
evolutionarily conserved signaling intermediate in toll pathway; ecsit. [refseq;acc:nm_016581] Divided 210.369 211.992 1.00772
2093 gtp cyclohydrolase i (ec 3.5.4.16) (gtp-ch-i). [swissprot;acc:p30793] Subtracted 227.851 226.277 1.574
ribokinase (ec 2.7.1.15). [swissprot;acc:q9h477] Divided 208.387 209.994 1.00771
2094 pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278] 205.747 207.321 1.00765
Subtracted 1.574
2095 lim domain only 7; zinc-finger domain-containing protein; lomp protein; f-box only protein 20; f-box protein fbx20. [refseq;acc:nm_005358] 217.801 216.23 1.571
polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999] Divided 227.53 229.266 1.00763
2096 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] Subtracted 217.93 216.36 1.57
limkain beta 2. [refseq;acc:nm_025140] Divided 216.089 217.723 1.00756
2097 delta-interacting protein a (hepatitis delta antigen interacting protein a). [swissprot;acc:q15834] 213.39 214.979 1.00745
transketolase (ec 2.2.1.1) (tk). [swissprot;acc:p29401] Subtracted 216.236 214.666 1.57
2098 ran-binding protein 2 (ranbp2) (nuclear pore complex protein nup358) (nucleoporin nup358) (358 kda nucleoporin) (p270). [swissprot;acc:p49792] 217.47 219.032 1.562
ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] Divided 178.831 177.515 1.00741
2099 ubiquitin-like protein smt3a. [swissprot;acc:p55854] 213.27 211.71 1.00737
Subtracted 1.56
2100 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855] Divided 1.00737
Subtracted 1.56
2101 acrc protein; putative nuclear protein. [refseq;acc:nm_052957] Divided 1.00737
Subtracted 1.56
2102 eukaryotic translation initiation factor 5a (eif-5a) (eif-4d) (rev- binding factor). [swissprot;acc:p10159] Divided 210.263 208.727 1.00736
potassium channel modulatory factor 1; potassium channel modulatory factor; differentially expressed in branching tubulogenesis 91; zinc finger, zz domain containing 1. [refseq;acc:nm_020122] Subtracted 222.788 221.248 1.54
2103 solute carrier family 23, member 1 (sodium-dependent vitamin c transporter 1) (hsvct1) (na(+)/l-ascorbic acid transporter 1) (yolk sac permease-like molecule 3). [swissprot;acc:q9uhi7]
transketolase (ec 2.2.1.1) (tk). [swissprot;acc:p29401] Divided 216.236 214.666 1.00731
2104 heterogeneous nuclear ribonucleoprotein a3 (hnrnp a3) (d10s102). [swissprot;acc:p51991] Subtracted 222.788 221.248 1.54
thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] Divided 207.813 209.328 1.00729
2105 adp-ribosylation factor 4. [swissprot;acc:p18085] Subtracted 222.788 221.248 1.54
eif-5a2 protein. [refseq;acc:nm_020390] Divided 210.111 208.591 1.00729
2106 fused toes homolog; likely ortholog of mouse fused toes. [refseq;acc:nm_022476] Subtracted 222.788 221.248 1.54
insulin gene enhancer protein isl-1 (islet-1). [swissprot;acc:p20663] Divided 196.061 197.489 1.00728
2107 lim domain only 7; zinc-finger domain-containing protein; lomp protein; f-box only protein 20; f-box protein fbx20. [refseq;acc:nm_005358] 217.801 216.23 1.00727
shc transforming protein. [swissprot;acc:p29353] Subtracted 222.788 221.248 1.54
2108 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] Divided 217.93 216.36 1.00726
zinc finger protein 289, id1 regulated; likely ortholog of mouse zfp289. [refseq;acc:nm_032389] Subtracted 222.788 221.248 1.54
2109 neuronal shc. [refseq;acc:nm_016848]
ran-binding protein 2 (ranbp2) (nuclear pore complex protein nup358) (nucleoporin nup358) (358 kda nucleoporin) (p270). [swissprot;acc:p49792] Divided 217.47 219.032 1.00718
2110 adp-ribosylation factor 1. [swissprot;acc:p32889] Subtracted 222.788 221.248 1.54
conserved oligomeric golgi complex component 6. [swissprot;acc:q9y2v7] Divided 209.607 211.099 1.00712
2111 heterogeneous nuclear ribonucleoprotein a1 (helix-destabilizing protein) (single-strand binding protein) (hnrnp core protein a1). [swissprot;acc:p09651] Subtracted 222.788 221.248 1.54
ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260] Divided 217.511 219.047 1.00706
2112 adp-ribosylation factor 3. [swissprot;acc:p16587] Subtracted 222.788 221.248 1.54
dna-directed rna polymerases iii 12.5 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c11 subunit) (hsc11p) (hrpc11) (my010 protein). [swissprot;acc:q9y2y1] Divided 224.989 223.415 1.00705
2113 protein sck (fragment). [swissprot;acc:p98077] Subtracted 222.788 221.248 1.54
ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260] Divided 217.533 219.055 1.007
2114 heterogeneous nuclear ribonucleoproteins a2/b1 (hnrnp a2 / hnrnp b1). [swissprot;acc:p22626] Subtracted 222.788 221.248 1.54
triacylglycerol lipase, gastric precursor (ec 3.1.1.3) (gastric lipase) (gl). [swissprot;acc:p07098] Divided 213.14 214.632 1.007
2115 ba304i5.1 (novel lipase) (fragment). [sptrembl;acc:q96lg2]

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/