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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2132 to 2181 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1066 zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022] High confidence 269.956 278.223 1.03062
1067 yippee-like protein 5. [swissprot;acc:q96ns1] Low confidence 187.77 183.38 1.02394
zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58] High confidence 269.956 278.223 1.03062
1068 disrupter of silencing 10. [refseq;acc:nm_020368] Low confidence 199.958 195.283 1.02394
zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6] High confidence 269.953 278.215 1.03061
1069 yippee-like protein 3 (digeorge syndrome-related protein fksg5). [swissprot;acc:q9bsj4] Low confidence 187.761 183.371 1.02394
zinc finger protein 232. [swissprot;acc:q9uny5] High confidence 269.954 278.218 1.03061
1070 sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962] Low confidence 203.828 199.067 1.02392
zinc finger protein 99. [refseq;acc:nm_032164] High confidence 269.954 278.218 1.03061
1071 dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] 231.277 238.356
trna isopentenylpyrophosphate transferase. [refseq;acc:nm_017646] Low confidence 200.19 195.515 1.02391
1072 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952] 203.286 198.543 1.02389
zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771] High confidence 269.954 278.217 1.03061
1073 e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040] Low confidence 210.723 205.809 1.02388
ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9] High confidence 216.901 210.485 1.03048
1074 adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109] Low confidence 191.57 187.103 1.02387
coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] High confidence 174.387 179.697 1.03045
1075 adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813] Low confidence 202.317 197.601 1.02387
coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678] High confidence 174.387 179.697 1.03045
1076 coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]
sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167] Low confidence 206.757 201.939 1.02386
1077 coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444] High confidence 174.387 179.697 1.03045
frizzled 5 precursor (frizzled-5) (fz-5) (hfz5) (fze5). [swissprot;acc:q13467] Low confidence 206.587 201.773 1.02386
1078 er lumen protein retaining receptor 2 (kdel receptor 2) (elp-1). [swissprot;acc:p33947] 202.92 198.191
peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9] High confidence 174.387 179.697 1.03045
1079 coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]
er lumen protein retaining receptor 1 (kdel receptor 1). [swissprot;acc:p24390] Low confidence 202.92 198.191 1.02386
1080 brain protein 44-like protein (hspc040) (cgi-129) (pnas-115). [swissprot;acc:q9y5u8] 196.378 191.803 1.02385
zinc finger protein 444; endothelial zinc finger protein 2. [refseq;acc:nm_018337] High confidence 269.896 278.093 1.03037
1081 40s ribosomal protein s30. [swissprot;acc:q05472] 223.44 216.875 1.03027
eukaryotic translation initiation factor 3 subunit 8 (eif3 p110) (eif3c). [swissprot;acc:q99613] Low confidence 202.98 198.253 1.02384
1082 histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113] 203.804 199.058
phafin 2; ph and fyve domain-containing protein 2. [refseq;acc:nm_024613] High confidence 220.118 213.685 1.03011
1083 3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]
protein p25-beta. [swissprot;acc:p59282] Low confidence 203.939 199.193 1.02383
1084 3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213] High confidence 220.118 213.685 1.03011
elovl family member 6, elongation of long chain fatty acids (fen1/elo2, sur4/elo3-like, yeast); long-chain fatty-acyl elongase. [refseq;acc:nm_024090] Low confidence 200.38 195.716 1.02383
1085 25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 203.933 199.188 1.02382
dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] High confidence 231.007 237.864 1.02968
1086 protein cgi-38. [swissprot;acc:q9bw30] Low confidence 203.9 199.157 1.02382
similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] High confidence 236.679 243.679 1.02958
1087 cab2. [refseq;acc:nm_033419] Low confidence 200.375 195.715 1.02381
zinc finger protein 277. [swissprot;acc:q9nrm2] High confidence 236.679 243.679 1.02958
1088 annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995] 219.673 213.378 1.0295
sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [refseq;acc:nm_003676] Low confidence 203.333 198.607 1.0238
1089 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] High confidence 121.428 125.004 1.02945
neuronal cell death inducible putative kinase (skip3). [swissprot;acc:q96ru7] Low confidence 203.522 198.791 1.0238
1090 g-protein-coupled receptor induced protein. [refseq;acc:nm_025195] 203.52 198.79 1.02379
similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] High confidence 226.218 232.88 1.02945
1091 block 23. [sptrembl;acc:q8nhw5] 226.205 232.858 1.02941

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/