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.


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 Hugo description Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2180 to 2229 of 8289 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
1090 TRIB1 g-protein-coupled receptor induced protein. [refseq;acc:nm_025195] Low confidence 203.52 198.79 1.02379
1091 no value block 23. [sptrembl;acc:q8nhw5] High confidence 226.205 232.858 1.02941
CPT1C carnitine palmitoyltransferase i related c. [refseq;acc:nm_152359] Low confidence 203.519 198.789 1.02379
1092 EPHB1 ephrin type-b receptor 1 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-2) (net) (hek6) (elk). [swissprot;acc:p54762] 210.722 205.826
RPLP0 60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] High confidence 226.203 232.855 1.02941
1093 COPA coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [swissprot;acc:p53621] 177.432 182.647 1.02939
EPHA5 ephrin type-a receptor 5 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-1) (eph homology kinase-1) (receptor protein- tyrosine kinase hek7). [swissprot;acc:p54756] Low confidence 210.722 205.826 1.02379
1094 ANXA7 annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073] High confidence 219.655 213.385 1.02938
EPHA2 ephrin type-a receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eck) (epithelial cell kinase). [swissprot;acc:p29317] Low confidence 210.722 205.826 1.02379
1095 GTPBP3 mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620] High confidence 213.552 207.463 1.02935
SLC7A1 high-affinity cationic amino acid transporter-1 (cat-1) (cat1) (system y+ basic amino acid transporter) (ecotropic retroviral leukemia receptor homolog) (err) (ecotropic retrovirus receptor homolog). [swissprot;acc:p30825] Low confidence 200.661 195.999 1.02379
1096 EPHA7 ephrin type-a receptor 7 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-3) (eph homology kinase-3) (receptor protein- tyrosine kinase hek11). [swissprot;acc:q15375] 210.722 205.826
NDUFB9 nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] High confidence 212.345 206.339 1.02911
1097 ATP2C2 probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] 209.123 203.208
EPHB2 ephrin type-b receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-3) (drt) (receptor protein-tyrosine kinase hek5) (erk). [swissprot;acc:p29323] Low confidence 210.722 205.826 1.02379
1098 AP3M1 adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2] High confidence 217.323 211.185 1.02906
EPHA4 ephrin type-a receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor sek) (receptor protein-tyrosine kinase hek8). [swissprot;acc:p54764] Low confidence 210.722 205.826 1.02379
1099 AP3M2 adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677] High confidence 217.315 211.183 1.02904
CPT1A carnitine o-palmitoyltransferase i, mitochondrial liver isoform (ec 2.3.1.21) (cpt i) (cpti-l). [swissprot;acc:p50416] Low confidence 203.519 198.789 1.02379
1100 no value ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760] 210.722 205.826
ATP2C1 calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194] High confidence 209.052 203.183 1.02889
1101 EPHB6 ephrin type-b receptor 6 precursor (tyrosine-protein kinase-defective receptor eph-6) (hep). [swissprot;acc:o15197] Low confidence 210.722 205.826 1.02379
KARS lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [swissprot;acc:q15046] High confidence 220.291 226.584 1.02857
1102 no value 40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 229.442 235.974 1.02847
EPHA8 ephrin type-a receptor 8 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eek) (eph-and elk-related kinase) (hek3). [swissprot;acc:p29322] Low confidence 210.722 205.826 1.02379
1103 EPHA3 ephrin type-a receptor 3 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor etk1) (hek) (hek4). [swissprot;acc:p29320]
RPS27L ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920] High confidence 229.441 235.972 1.02846
1104 FZD8 frizzled 8 precursor (frizzled-8) (fz-8) (hfz8). [swissprot;acc:q9h461] Low confidence 206.584 201.786 1.02378
HAO1 hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8] High confidence 231.922 238.486 1.0283
1105 FDX1 adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109] 191.139 185.882 1.02828
TRIB2 tribbles homolog 2. [refseq;acc:nm_021643] Low confidence 203.515 198.787 1.02378
1106 no value mitochondrial carrier protein mgc4399. [refseq;acc:nm_032315] 201.02 196.352 1.02377
PEX5L pxr2b protein. [refseq;acc:nm_016559] High confidence 212.945 207.109 1.02818
1107 RHCG rh type c glycoprotein. [refseq;acc:nm_016321] Low confidence 201.221 196.55 1.02376
SPTLC2 serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [swissprot;acc:o15270] High confidence 204.603 210.324 1.02796
1108 FOXK2 interleukin enhancer-binding factor 1 (cellular transcription factor ilf-1). [swissprot;acc:q01167] 218.006 212.119 1.02775
VAPB vesicle-associated membrane protein-associated protein b/c (vamp- associated protein b/c) (vamp-b/vamp-c) (vap-b/vap-c). [swissprot;acc:o95292] Low confidence 204.27 199.529 1.02376
1109 MAPK13 mitogen-activated protein kinase 13 (ec 2.7.1.37) (stress-activated protein kinase-4) (mitogen-activated protein kinase p38 delta) (map kinase p38 delta). [swissprot;acc:o15264] 200.443 195.793 1.02375
TPT1 translationally controlled tumor protein (tctp) (p23) (histamine- releasing factor) (hrf). [swissprot;acc:p13693] High confidence 218.098 212.209 1.02775
1110 GIT2 arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161] 216.78 222.782 1.02769
LBR lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [swissprot;acc:q14739] Low confidence 201.984 197.299 1.02375
1111 no value apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] High confidence 217.99 212.123 1.02766
TM7SF2 delta(14)-sterol reductase (ec 1.3.1.70) (c-14 sterol reductase) (sterol c14-reductase) (delta14-sr) (transmembrane 7 superfamily member 2) (another new gene 1) (putative sterol reductase sr-1). [swissprot;acc:o76062] Low confidence 202.004 197.323 1.02372
1112 HNF4G hepatocyte nuclear factor 4-gamma (hnf-4-gamma). [swissprot;acc:q14541] High confidence 251.863 258.829 1.02766
VAPA vesicle-associated membrane protein-associated protein a (vamp- associated protein a) (vamp-a) (vap-a) (33 kda vamp-associated protein) (vap-33). [swissprot;acc:q9p0l0] Low confidence 204.256 199.524 1.02372
1113 CYB5R2 cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229] 200.326 195.686 1.02371
GADD45G growth arrest and dna-damage-inducible protein gadd45 gamma (cytokine responsive protein cr6). [swissprot;acc:o95257] High confidence 251.863 258.829 1.02766
1114 GADD45A growth arrest and dna-damage-inducible protein gadd45 alpha (dna- damage inducible transcript 1) (ddit1). [swissprot;acc:p24522]
SLC7A3 solute carrier family 7 (cationic amino acid transporter, y+ system), member 3. [refseq;acc:nm_032803] Low confidence 200.679 196.033 1.0237
1115 HNF4A hepatocyte nuclear factor 4-alpha (hnf-4-alpha) (transcription factor hnf-4) (transcription factor 14). [swissprot;acc:p41235] High confidence 251.863 258.829 1.02766

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
- Hugo is the HGNC identifier if it exists
- 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/