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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Gene Filtered Rank description Network Comparison Type Value Type Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 9634 in total
Filtered  : 0
Network Comparison Type  : Divided
Value Type  : Measured
Rank
description
Interaction Map
green
red
network_comparison
276 apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] High confidence 12125.1 10817.1 1.12092
zinc finger protein 230 (zinc finger protein fdzf2). [swissprot;acc:q9uie0] Low confidence 1970.7 2353.79 1.19439
277 disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] High confidence 975.647 870.93 1.12024
krab zinc finger protein hzf26 (fragment). [sptrembl;acc:q9bze6] Low confidence 1970.8 2353.9 1.19439
278 rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513] High confidence 1932 2162.33 1.11922
zinc finger protein 195. [swissprot;acc:o14628] Low confidence 1970.76 2353.86 1.19439
279 cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614] High confidence 610.424 545.902 1.11819
zinc finger protein 233. [refseq;acc:nm_181756] Low confidence 1970.95 2354.06 1.19438
280 neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] High confidence 610.424 545.902 1.11819
zinc finger protein 334. [swissprot;acc:q9hcz1] Low confidence 1970.91 2354.02 1.19438
281 transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594] High confidence 610.424 545.902 1.11819
zinc finger imprinted 3. [swissprot;acc:q96pe6] Low confidence 1971.17 2354.3 1.19437
282 pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790] High confidence 199.751 178.955 1.11621
zinc finger protein 223. [swissprot;acc:q9uk11] Low confidence 1971.21 2354.34 1.19436
283 lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] High confidence 753.849 841.301 1.11601
zinc finger protein 350; zinc-finger protein zbrk1. [refseq;acc:nm_021632] Low confidence 1971.32 2354.46 1.19436
284 60s ribosomal protein l23 (l17). [swissprot;acc:p23131] High confidence 1956.36 1753.85 1.11547
similar to zinc finger protein 20 (zinc finger protein kox13) (dkfzp572p0920). [refseq;acc:nm_145233] Low confidence 1971.25 2354.39 1.19436
285 dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9] High confidence 3010.22 2698.62 1.11547
zinc finger protein 222. [swissprot;acc:q9uk12] Low confidence 1971.25 2354.39 1.19436
286 clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675] High confidence 6127.24 5497.01 1.11465
zinc finger protein 169 (fragment). [swissprot;acc:q14929] Low confidence 1971.82 2355 1.19433
287 5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196] High confidence 808.929 726.245 1.11385
b-lymphocyte activation-related protein. [sptrembl;acc:q96pn3] Low confidence 1972.04 2355.24 1.19432
288 likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745] High confidence 1161.64 1293.73 1.11371
zinc finger protein 8 (zinc finger protein hf.18) (fragment). [swissprot;acc:p17098] Low confidence 1972.19 2355.41 1.19431
289 tubby protein homolog. [swissprot;acc:p50607] High confidence 4228.27 3797.57 1.11341
zinc finger protein zfp6 (fragment). [sptrembl;acc:q92967] Low confidence 1972.28 2355.5 1.1943
290 dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] High confidence 1525.56 1370.82 1.11288
zinc finger protein 80 (znfpt17). [swissprot;acc:p51504] Low confidence 1972.55 2355.8 1.19429
291 similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] High confidence 2179.77 1961.09 1.11151
zinc finger protein 187. [refseq;acc:nm_152736] Low confidence 1972.44 2355.67 1.19429
292 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] High confidence 12473 11223 1.11138
zinc finger protein 302 (znf135-like) (znf140-like). [swissprot;acc:q9nr11] Low confidence 1972.44 2355.67 1.19429
293 block 23. [sptrembl;acc:q8nhw5] High confidence 2159.55 1943.32 1.11127
zinc finger protein 95 homolog (zfp-95). [swissprot;acc:q9y2l8] Low confidence 1972.76 2356.02 1.19428
294 mesoderm induction early response 1. [refseq;acc:nm_020948] High confidence 1723.5 1914.5 1.11082
zinc finger protein 32 (zinc finger protein kox30) (fragment). [swissprot;acc:p17041] Low confidence 1973.79 2357.14 1.19422
295 adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5] High confidence 384.843 426.8 1.10902
zinc finger protein 77 (znfpt1) (fragment). [swissprot;acc:q15935] Low confidence 1976.03 2359.55 1.19409
296 microtubule-interacting protein that associates with traf3; interleukin 13 receptor alpha 1-binding protein-1. [refseq;acc:nm_015650] 363 304 1.19408
pnas-18. [sptrembl;acc:q9bzu3] High confidence 2035.28 2256.05 1.10847
297 40s ribosomal protein s29. [swissprot;acc:p30054] 1895.38 1711.6 1.10737
ttf-i interacting peptide 20 (fragment). [sptrembl;acc:o00455] Low confidence 1976.2 2359.74 1.19408
298 williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71] High confidence 848 939 1.10731
zinc finger-like protein (fragment). [sptrembl;acc:q9uia8] Low confidence 1976.33 2359.88 1.19407
299 cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] High confidence 2015.09 2231.05 1.10717
zinc finger protein 75. [swissprot;acc:p51815] Low confidence 1976.69 2360.26 1.19405
300 putative zinc finger protein (fragment). [sptrembl;acc:q8n692] 1976.61 2360.18
sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] High confidence 1205.1 1334.19 1.10712

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/