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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Interaction Map Value Type Gene Filtered Rank description green Network Comparison Type red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 29840 in total
Interaction Map  : High confidence
Value Type  : Measured
Filtered  : 0
Rank
description
green
Network Comparison Type
red
network_comparison
251 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] 142.417 Subtracted 270.264 127.847
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 1079.38 Divided 1225.08 1.13498
252 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 2164.92 Subtracted 2039.47 125.45
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 1079.38 Divided 1225.08 1.13498
253 espin. [refseq;acc:nm_031475] 1225.07
hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934] 681 Subtracted 556 125
254 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 1495.66 Divided 1318.22 1.13461
dc11 protein. [refseq;acc:nm_020186] 681 Subtracted 556 125
255 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 1495.22 Divided 1317.84 1.1346
camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612] 2633.79 Subtracted 2509.05 124.74
256 histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106] 4091.59 3967.18 124.41
keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 1079.77 Divided 1224.65 1.13418
257 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 759.896 861.401 1.13358
dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2] 612.604 Subtracted 488.43 124.174
258 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 1337.54 Divided 1183.16 1.13048
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 6.50325 Subtracted 130.512 124.009
259 60s ribosomal protein l23a. [swissprot;acc:p29316] 1463.51 Divided 1295.49 1.1297
myosin vi. [swissprot;acc:q9um54] 224.096 Subtracted 345.865 121.769
260 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 1268.19 1388.45 120.26
voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 2202 Divided 1949.36 1.1296
261 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 1463.55 1295.81 1.12945
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] 86.9525 Subtracted 205.439 118.486
262 adenylyl cyclase-associated protein 2 (cap 2). [swissprot;acc:p40123] 676.971 Divided 764.479 1.12926
crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] 723.75 Subtracted 606.049 117.701
263 dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7] 615.233 498.07 117.163
sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] 1633 Divided 1843 1.1286
264 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] 1721.76 Subtracted 1837.26 115.5
sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] 2957.12 Divided 3336.48 1.12829
265 60s ribosomal protein l9. [swissprot;acc:p32969] 1894.01 1685.44 1.12375
pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 109 Subtracted 0 109
266 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 1104.61 1212.82 108.21
aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448] 1312.91 Divided 1475.05 1.1235
267 disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] 975.647 Subtracted 870.93 104.717
uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452] 1312.91 Divided 1475.05 1.1235
268 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 759.896 Subtracted 861.401 101.505
far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902] 538.094 Divided 604.529 1.12346
269 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 1367.83 1217.92 1.12309
syntaxin 10 (syn10). [swissprot;acc:o60499] 17.6611 Subtracted 118.878 101.217
270 heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 56 157 101
ribosomal protein l10-like protein. [refseq;acc:nm_080746] 1367.88 Divided 1217.96 1.12309
271 60s ribosomal protein l39. [swissprot;acc:p02404] 2923.92 Subtracted 3024.78 100.86
histone h4. [swissprot;acc:p02304] 24446.3 Divided 21773.1 1.12278
272 60s ribosomal protein l15. [swissprot;acc:p39030] 753.793 846.216 1.12261
hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] 650.724 Subtracted 750.981 100.257
273 cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 758.411 658.544 99.867
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 1582.65 Divided 1410.81 1.1218
274 adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] 1591.6 Subtracted 1491.75 99.85
brain protein 16. [refseq;acc:nm_016458] 2418.14 Divided 2155.75 1.12172
275 pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] 2254.12 Subtracted 2156.64 97.48
swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075] 804.725 Divided 717.401 1.12172

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/