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.


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description Rank Gene Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3182 to 3228 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
description
Rank
red
green
network_comparison
yip1 interacting factor homolog; yip1p-interacting factor; putative rab5-interacting protein; putative transmembrane protein 54tmp. [refseq;acc:nm_020470] 1955 211.633 213.703 1.00978
yl-1 protein (transcription factor-like 1). [swissprot;acc:q15906] 1639 194.516 197.364 1.01464
yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263] 528 222.146 237.393 1.06864
z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24] 1626 217.446 214.2 1.01515
zasp protein (fragment). [sptrembl;acc:q9y4z3] 1992 219.267 217.207 1.00948
zinc finger daz interacting protein 1. [refseq;acc:nm_014934] 2981 0.00001 0.00001 1
zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315] 2278 191.936 190.909 1.00538
zinc finger imprinted 2. [swissprot;acc:q9nzv7] 1063 269.96 278.232 1.03064
zinc finger protein 174 (aw-1). [swissprot;acc:q15697] 1062 269.963 278.239 1.03066
zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022] 1066 269.956 278.223 1.03062
zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7] 2630 224.891 225.195 1.00135
zinc finger protein 207. [swissprot;acc:o43670] 1633 221.934 218.658 1.01498
zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771] 1072 269.954 278.217 1.03061
zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58] 1067 269.956 278.223 1.03062
zinc finger protein 232. [swissprot;acc:q9uny5] 1069 269.954 278.218 1.03061
zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028] 1064 269.955 278.221 1.03062
zinc finger protein 258. [refseq;acc:nm_145310] 2622 224.891 225.195 1.00135
zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202] 2623
zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095] 2624
zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6] 1068 269.953 278.215 1.03061
zinc finger protein 277. [swissprot;acc:q9nrm2] 1087 236.679 243.679 1.02958
zinc finger protein 288 (dendritic-derived btb/poz zinc finger protein). [swissprot;acc:q9hc78] 2444 206.086 206.753 1.00324
zinc finger protein 289, id1 regulated; likely ortholog of mouse zfp289. [refseq;acc:nm_032389] 2126 221.248 222.788 1.00696
zinc finger protein 291. [swissprot;acc:q9by12] 350 242.14 265.696 1.09728
zinc finger protein 305. [swissprot;acc:o43309] 1065 269.954 278.219 1.03062
zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822] 1487 207.877 203.989 1.01906
zinc finger protein 444; endothelial zinc finger protein 2. [refseq;acc:nm_018337] 1080 269.896 278.093 1.03037
zinc finger protein 99. [refseq;acc:nm_032164] 1070 269.954 278.218 1.03061
zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [swissprot;acc:p08151] 2466 235.812 235.088 1.00308
zinc finger protein gli2 (tax helper protein). [swissprot;acc:p10070] 2471
zinc finger protein gli3. [swissprot;acc:p10071] 2468
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 1557 196.192 192.996 1.01656
zinc finger protein t86. [swissprot;acc:o00488] 579 246.805 231.796 1.06475
zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915] 1348 218.569 213.832 1.02215
zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409] 1350 218.574 213.847 1.0221
zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481] 1349 218.572 213.841 1.02212
zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1] 1327 218.509 213.648 1.02275
zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] 2190 209.54 208.162 1.00662
zinc finger-like protein 9. [refseq;acc:nm_033414] 532 250.942 235.004 1.06782
zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596] 580 236.751 252.038 1.06457
zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5] 2822 0.00001 0.00001 1
zinc transporter 3 (znt-3). [swissprot;acc:q99726] 3049
zinc-finger protein zpr1 (zinc finger protein 259). [swissprot;acc:o75312] 2435 217.366 218.117 1.00346
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] 960 237.558 229.677 1.03431
[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874] 1518 213.259 209.524 1.01783
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118] 1507 213.274 209.5 1.01801
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119] 1508

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/