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.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green 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
red
green
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 222.609 224.344 1.00779
2091 adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566] Subtracted 193.226 191.639 1.587
rna, u transporter 1; snurportin-1. [refseq;acc:nm_005701] Divided 211.679 210.052 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 223.415 224.989 1.574
evolutionarily conserved signaling intermediate in toll pathway; ecsit. [refseq;acc:nm_016581] Divided 211.992 210.369 1.00772
2093 gtp cyclohydrolase i (ec 3.5.4.16) (gtp-ch-i). [swissprot;acc:p30793] Subtracted 226.277 227.851 1.574
ribokinase (ec 2.7.1.15). [swissprot;acc:q9h477] Divided 209.994 208.387 1.00771
2094 pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278] 207.321 205.747 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] 216.23 217.801 1.571
polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999] Divided 229.266 227.53 1.00763
2096 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] Subtracted 216.36 217.93 1.57
limkain beta 2. [refseq;acc:nm_025140] Divided 217.723 216.089 1.00756
2097 delta-interacting protein a (hepatitis delta antigen interacting protein a). [swissprot;acc:q15834] 214.979 213.39 1.00745
transketolase (ec 2.2.1.1) (tk). [swissprot;acc:p29401] Subtracted 214.666 216.236 1.57
2098 ran-binding protein 2 (ranbp2) (nuclear pore complex protein nup358) (nucleoporin nup358) (358 kda nucleoporin) (p270). [swissprot;acc:p49792] 219.032 217.47 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 177.515 178.831 1.00741
2099 ubiquitin-like protein smt3a. [swissprot;acc:p55854] 211.71 213.27 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 208.727 210.263 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 221.248 222.788 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 214.666 216.236 1.00731
2104 heterogeneous nuclear ribonucleoprotein a3 (hnrnp a3) (d10s102). [swissprot;acc:p51991] Subtracted 221.248 222.788 1.54
thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] Divided 209.328 207.813 1.00729
2105 adp-ribosylation factor 4. [swissprot;acc:p18085] Subtracted 221.248 222.788 1.54
eif-5a2 protein. [refseq;acc:nm_020390] Divided 208.591 210.111 1.00729
2106 fused toes homolog; likely ortholog of mouse fused toes. [refseq;acc:nm_022476] Subtracted 221.248 222.788 1.54
insulin gene enhancer protein isl-1 (islet-1). [swissprot;acc:p20663] Divided 197.489 196.061 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] 216.23 217.801 1.00727
shc transforming protein. [swissprot;acc:p29353] Subtracted 221.248 222.788 1.54
2108 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] Divided 216.36 217.93 1.00726
zinc finger protein 289, id1 regulated; likely ortholog of mouse zfp289. [refseq;acc:nm_032389] Subtracted 221.248 222.788 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 219.032 217.47 1.00718
2110 adp-ribosylation factor 1. [swissprot;acc:p32889] Subtracted 221.248 222.788 1.54
conserved oligomeric golgi complex component 6. [swissprot;acc:q9y2v7] Divided 211.099 209.607 1.00712
2111 heterogeneous nuclear ribonucleoprotein a1 (helix-destabilizing protein) (single-strand binding protein) (hnrnp core protein a1). [swissprot;acc:p09651] Subtracted 221.248 222.788 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 219.047 217.511 1.00706
2112 adp-ribosylation factor 3. [swissprot;acc:p16587] Subtracted 221.248 222.788 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 223.415 224.989 1.00705
2113 protein sck (fragment). [swissprot;acc:p98077] Subtracted 221.248 222.788 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 219.055 217.533 1.007
2114 heterogeneous nuclear ribonucleoproteins a2/b1 (hnrnp a2 / hnrnp b1). [swissprot;acc:p22626] Subtracted 221.248 222.788 1.54
triacylglycerol lipase, gastric precursor (ec 3.1.1.3) (gastric lipase) (gl). [swissprot;acc:p07098] Divided 214.632 213.14 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/