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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2213 to 2262 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
red
green
network_comparison
2213 DHDH dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475] 210.127 211.475 1.00642
2214 FABP4 fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [swissprot;acc:p15090] 221.509 220.108 1.00637
2215 no value fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [swissprot;acc:q01469]
2216 FABP7 fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540]
2217 WDR4 wd-repeat protein 4. [swissprot;acc:p57081]
2218 PMP2 myelin p2 protein. [swissprot;acc:p02689]
2219 KLHL8 kelch-like protein 8. [swissprot;acc:q9p2g9]
2220 PNMT phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]
2221 no value beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
2222 BCMO1 beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429]
2223 FABP3 fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [swissprot;acc:p05413]
2224 RPE65 retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [refseq;acc:nm_000329]
2225 INMT indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050]
2226 CFL1 cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528] 217.955 219.336 1.00634
2227 CFL2 cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]
2228 FDXR nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 211.81 213.153
2229 DSTN destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282] 217.955 219.336
2230 UFD1L ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [swissprot;acc:q92890]
2231 SYVN1 hrd1 protein isoform a; synoviolin1. [refseq;acc:nm_032431] 221.842 223.246 1.00633
2232 RAPSN 43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702] 215.547 214.194 1.00632
2233 TRIM3 tripartite motif protein 3 (ring finger protein 22) (brain-expressed ring finger protein). [swissprot;acc:o75382] 202.414 203.691 1.00631
2234 no value seven in absentia homolog 1. [refseq;acc:nm_003031] 223.608 225.005 1.00625
2235 RARS2 arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320] 200.95 199.711 1.0062
2236 no value protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] 222.959 224.337 1.00618
2237 BRD3 bromodomain-containing protein 3 (ring3-like protein). [swissprot;acc:q15059] 222.965 224.343
2238 BRD4 bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885] 222.959 224.337
2239 BRDT testis-specific bromodomain protein. [refseq;acc:nm_001726] 222.958 224.336
2240 LRRC4 nag14 protein. [refseq;acc:nm_022143] 222.959 224.337
2241 BRD2 bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440] 222.96 224.338
2242 ITM2B integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287] 209.197 207.915 1.00617
2243 ITM2C integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7]
2244 ITM2A integral membrane protein 2a (e25 protein). [swissprot;acc:o43736]
2245 FBLN2 fibulin-2 precursor. [swissprot;acc:p98095] 191.618 190.448 1.00614
2246 MRPL18 mitochondrial ribosomal protein l18. [refseq;acc:nm_014161] 223.58 224.943 1.0061
2247 ADI1 sipl protein. [refseq;acc:nm_018269] 208.609 207.346 1.00609
2248 KIF3C kinesin-like protein kif3c. [swissprot;acc:o14782] 219.045 220.377 1.00608
2249 PC pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498] 181.091 179.999 1.00607
2250 CSTF2T likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235] 164.064 165.058 1.00606
2251 ENOPH1 e-1 enzyme. [refseq;acc:nm_021204] 208.315 207.061
2252 ALAD delta-aminolevulinic acid dehydratase (ec 4.2.1.24) (porphobilinogen synthase) (aladh). [swissprot;acc:p13716] 217.185 218.498 1.00605
2253 KIF3B kinesin-like protein kif3b (microtubule plus end-directed kinesin motor 3b) (hh0048). [swissprot;acc:o15066] 219.047 220.371 1.00604
2254 no value ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986] 193.065 194.22 1.00598
2255 ZFHX3 alpha-fetoprotein enhancer binding protein (at motif-binding factor) (at-binding transcription factor 1). [swissprot;acc:q15911] 202.366 203.57 1.00595
2256 SIAH2 seven in absentia homolog 2. [refseq;acc:nm_005067] 223.546 224.869 1.00592
2257 QPRT nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [swissprot;acc:q15274] 212.563 211.315 1.00591
2258 CDC37 hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 223.888 225.191 1.00582
2259 DMC1 meiotic recombination protein dmc1/lim15 homolog. [swissprot;acc:q14565] 213.391 214.606 1.00569
2260 TSEN34 leng5 protein. [refseq;acc:nm_024075] 221.599 220.351 1.00566
2261 WARS tryptophanyl-trna synthetase (ec 6.1.1.2) (tryptophan--trna ligase) (trprs) (ifp53) (hwrs). [swissprot;acc:p23381]
2262 no value ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916]

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/