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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Gene Rank description Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1812 to 1861 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
906 pbk1 protein. [sptrembl;acc:o76021] Subtracted 235.353 243.312 7.959
907 junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923] Divided 215.653 223.906 1.03827
peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570] Subtracted 218.017 225.976 7.959
908 sedlin. [swissprot;acc:o14582] 121.261 129.219 7.958
tax interaction protein 1. [refseq;acc:nm_014604] Divided 215.653 223.906 1.03827
909 septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] 136.846 142.077 1.03823
synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Subtracted 121.261 129.219 7.958
910 bet3 homolog. [swissprot;acc:o43617]
uba/ubx 33.3 kda protein. [swissprot;acc:q04323] Divided 209.207 217.168 1.03805
911 ero1-like. [refseq;acc:nm_014584]
mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352] Subtracted 218.015 225.955 7.94
912 mitochondrial translational release factor 1-like. [refseq;acc:nm_019041] 218.013 225.939 7.926
wd-repeat protein 3. [swissprot;acc:q9unx4] Divided 234.96 243.896 1.03803
913 atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] Subtracted 235.373 243.297 7.924
prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831] Divided 218.878 210.863 1.03801
914 guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Subtracted 229.677 237.558 7.881
pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399] Divided 218.878 210.863 1.03801
915 trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] 140.692 146.036 1.03798
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] Subtracted 229.677 237.558 7.881
916 histone h4. [swissprot;acc:p02304] 219.902 227.765 7.863
hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [swissprot;acc:q9nyq3] Divided 241.288 232.512 1.03774
917 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Subtracted 78.8995 86.7483 7.8488
parafibromin. [refseq;acc:nm_024529] Divided 230.991 239.704 1.03772
918 imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] Subtracted 210.139 217.942 7.803
ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Divided 205.292 212.952 1.03731
919 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] Subtracted 210.139 217.942 7.803
midasin (midas-containing protein). [swissprot;acc:q9nu22] Divided 228.698 237.218 1.03725
920 breast cancer type 1 susceptibility protein. [swissprot;acc:p38398] Subtracted 224.27 216.501 7.769
deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398] Divided 245.547 236.741 1.0372
921 rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]
wd-repeat protein bing4. [swissprot;acc:o15213] Subtracted 235.475 243.227 7.752
922 map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650] Divided 245.547 236.741 1.0372
pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] Subtracted 207.942 215.665 7.723
923 hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492] 185.412 193.114 7.702
map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954] Divided 245.547 236.741 1.0372
924 meiotic recombination protein spo11. [swissprot;acc:q9y5k1]
sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] Subtracted 231.059 238.725 7.666
925 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] Divided 207.942 215.665 1.03714
protein bap28. [swissprot;acc:q9h583] Subtracted 236.647 244.312 7.665
926 imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] Divided 210.139 217.942 1.03713
ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Subtracted 205.292 212.952 7.66
927 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] Divided 210.139 217.942 1.03713
splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] Subtracted 212.618 220.246 7.628
928 peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570] Divided 218.017 225.976 1.03651
splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] Subtracted 212.618 220.246 7.628
929 apoptosis antagonizing transcription factor. [refseq;acc:nm_012138] 235.422 243.045 7.623
mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352] Divided 218.015 225.955 1.03642
930 programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737] Subtracted 225.782 233.402 7.62
pyruvate kinase, m1 isozyme (ec 2.7.1.40) (pyruvate kinase muscle isozyme) (cytosolic thyroid hormone-binding protein) (cthbp) (thbp1). [swissprot;acc:p14618] Divided 239.778 231.357 1.0364
931 ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6] 164.917 159.13 1.03637

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/