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 green Value Type Network Comparison Type Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 451 to 500 of 9634 in total
Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
Rank
description
green
Interaction Map
red
network_comparison
226 rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150] 16992.9 High confidence 15395.7 1.10374
similar to zinc finger protein 91 (hpf7, htf10) (fragment). [sptrembl;acc:q86w65] 4851.08 Low confidence 4254.31 1.14027
227 tigger transposable element derived 6. [refseq;acc:nm_030953] 11200.2 High confidence 12360 1.10355
zinc finger protein 234 (zinc finger protein hzf4) (fragment). [swissprot;acc:q14588] 4851.42 Low confidence 4254.63 1.14027
228 soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] 11370.4 High confidence 10303.5 1.10355
zinc finger protein 41. [swissprot;acc:p51814] 4851.25 Low confidence 4254.47 1.14027
229 poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] 9878.1 High confidence 10899.4 1.10339
zinc finger protein 300. [swissprot;acc:q96re9] 4851.08 Low confidence 4254.31 1.14027
230 tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] 11207.7 High confidence 12364.7 1.10323
zinc finger protein zfp31 (fragment). [sptrembl;acc:q92971] 4851.08 Low confidence 4254.31 1.14027
231 tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] 11207.9 High confidence 12364.8 1.10322
zinc finger protein 226. [swissprot;acc:q9nyt6] 4851.67 Low confidence 4254.87 1.14026
232 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 11240.2 High confidence 12394.7 1.10271
zinc finger protein 33a (zinc finger protein kox31) (ha0946). [swissprot;acc:q06730] 4852.02 Low confidence 4255.19 1.14026
233 60s acidic ribosomal protein p1. [swissprot;acc:p05386] 10560 High confidence 9586.97 1.1015
zinc finger protein 347 (zinc finger 1111). [swissprot;acc:q96se7] 4852.69 Low confidence 4255.83 1.14025
234 transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884] 18296 High confidence 16614 1.10124
zinc finger protein 93 (zinc finger protein htf34). [refseq;acc:nm_145312] 4852.44 Low confidence 4255.59 1.14025
235 elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [swissprot;acc:p04720] 16027.9 High confidence 14554.5 1.10123
zinc finger protein 157 (hzf22). [swissprot;acc:p51786] 4852.69 Low confidence 4255.83 1.14025
236 protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 16788.5 High confidence 15245.4 1.10122
zinc finger protein 92 (zinc finger protein htf12) (fragment). [swissprot;acc:q03936] 4852.69 Low confidence 4255.83 1.14025
237 bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340] 9067 High confidence 9984 1.10114
zinc finger protein 211 (zinc finger protein c2h2-25). [swissprot;acc:q13398] 4852.69 Low confidence 4255.83 1.14025
238 cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] 13941.7 High confidence 12677.7 1.0997
similar to zinc finger protein 85 (zinc finger protein hpf4) (htf1). [refseq;acc:nm_145287] 4853.29 Low confidence 4256.39 1.14024
239 mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] 9795.36 High confidence 8907.41 1.09969
similar to zinc finger protein 136. [refseq;acc:nm_145295] 4853.29 Low confidence 4256.39 1.14024
240 methyltransferase like 2. [refseq;acc:nm_018396] 16326 High confidence 17946 1.09923
similar to dna-binding protein; zinc finger protein 253. [refseq;acc:nm_145297] 4853.29 Low confidence 4256.39 1.14024
241 secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] 12743.3 High confidence 14003.7 1.09891
zinc finger protein 132. [swissprot;acc:p52740] 4853.03 Low confidence 4256.15 1.14024
242 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 13895.8 High confidence 15260.6 1.09822
zinc finger protein 84 (zinc finger protein hpf2). [swissprot;acc:p51523] 4853.29 Low confidence 4256.39 1.14024
243 polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] 1373 High confidence 1251 1.09752
zinc finger protein 121 (zinc finger protein 20) (fragment). [swissprot;acc:p58317] 4853.62 Low confidence 4256.71 1.14023
244 keratin associated protein 9.2. [refseq;acc:nm_031961] 11579.9 High confidence 10551.1 1.09751
zinc finger protein af020591. [refseq;acc:nm_014480] 4853.87 Low confidence 4256.94 1.14023
245 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 13019 High confidence 11867.6 1.09702
zinc finger protein 20 (zinc finger protein kox13) (dkfzp572p0920). [swissprot;acc:p17024] 4853.87 Low confidence 4256.94 1.14023
246 keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] 11573.7 High confidence 10551.6 1.09687
zinc finger protein 11b (fragment). [swissprot;acc:q06732] 4853.45 Low confidence 4256.55 1.14023
247 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] 11573.7 High confidence 10551.6 1.09687
zinc finger protein 208. [swissprot;acc:o43345] 4853.87 Low confidence 4256.94 1.14023
248 keratin associated protein 1.5. [refseq;acc:nm_031957] 11573.7 High confidence 10551.6 1.09687
zinc finger protein 136. [swissprot;acc:p52737] 4853.62 Low confidence 4256.71 1.14023
249 gonadotropin inducible transcription repressor-1 (giot-1). [swissprot;acc:q8taf7] 4854.04 4257.1 1.14022
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 11573.7 High confidence 10551.6 1.09687
250 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]
zinc finger protein 85 (zinc finger protein hpf4) (htf1). [swissprot;acc:q03923] 4854.21 Low confidence 4257.26 1.14022

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/