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 description Network Comparison Type Value Type Interaction Map red network_comparison Filtered green
Results: HTML CSV LaTeX Showing element 2375 to 2424 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
network_comparison
green
1188 adp-ribosylation factor-like protein 4. [swissprot;acc:p40617] Divided 218.402 1.02582 212.904
alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] Subtracted 219.354 5.346 224.7
1189 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] Divided 209.649 1.02565 204.406
pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059] Subtracted 219.354 5.346 224.7
1190 integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418]
ubiquitin. [swissprot;acc:p02248] Divided 209.6 1.02558 204.372
1191 star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4] Subtracted 219.354 5.346 224.7
upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517] Divided 220.742 1.02558 215.237
1192 ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404] Subtracted 219.354 5.346 224.7
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] Divided 220.742 1.02558 215.237
1193 lbp-9. [refseq;acc:nm_014553]
ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283] Subtracted 219.354 5.346 224.7
1194 ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]
splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152] Divided 220.742 1.02558 215.237
1195 espin. [refseq;acc:nm_031475] Subtracted 219.354 5.346 224.7
skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192] Divided 269.608 1.02554 276.493
1196 cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635] Subtracted 219.354 5.346 224.7
kinesin protein. [refseq;acc:nm_032559] Divided 224.858 1.02551 219.264
1197 mstp028 protein. [refseq;acc:nm_031954] 219.042 1.02548 213.6
pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832] Subtracted 219.354 5.346 224.7
1198 lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]
skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643] Divided 269.59 1.02546 276.454
1199 d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917] Subtracted 219.354 5.346 224.7
u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566] Divided 241.496 1.02543 235.508
1200 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] Subtracted 219.354 5.345 224.699
swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824] Divided 219.03 1.0254 213.604
1201 keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062] Subtracted 219.354 5.345 224.699
succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040] Divided 210.986 1.0254 216.344
1202 diphthamide biosynthesis-like protein 2. [refseq;acc:nm_001384] 227.274 1.02537 233.041
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] Subtracted 219.354 5.345 224.699
1203 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829] Divided 219.023 1.02536 213.606
1204 keratin associated protein 1.5. [refseq;acc:nm_031957] Subtracted 219.354 5.345 224.699
polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863] Divided 219.022 1.02535 213.607
1205 keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690] Subtracted 219.354 5.345 224.699
ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590] Divided 224.805 1.02533 219.251
1206 integral membrane protein cii-3b. [sptrembl;acc:o75609] 207.646 1.02526 212.891
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] Subtracted 219.354 5.345 224.699
1207 keratin associated protein 4.4. [refseq;acc:nm_032524]
succinate dehydrogenase cytochrome b560 subunit, mitochondrial precursor (integral membrane protein cii-3) (qps1) (qps-1) (succinate dehydrogenase complex subunit c) (succinate-ubiquinone oxidoreductase cytochrome b large subunit) (cybl). [swissprot;acc:q99643] Divided 207.644 1.02525 212.888
1208 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] Subtracted 219.354 5.345 224.699
signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240] Divided 224.878 1.02524 219.342
1209 succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (ec 1.3.5.1) (ip) (iron-sulfur subunit of complex ii). [swissprot;acc:p21912] 207.931 1.02522 213.175
trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] Subtracted 146.036 5.344 140.692
1210 keratin associated protein 9.2. [refseq;acc:nm_031961] 219.353 5.325 224.678
kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139] Divided 224.764 1.02519 219.241
1211 chromosome 11 open reading frame2; chromosome 11 open reading frame2. [refseq;acc:nm_013265] 214.364 1.02517 219.759
coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] Subtracted 174.387 5.31 179.697
1212 coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]
kinesin-like protein kif13a (kinesin-like protein rbkin). [swissprot;acc:q9h1h9] Divided 214.364 1.02517 219.759

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/