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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 5080 to 5129 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
2540 pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559] Divided 6672.69 6827.51 1.0232
2541 tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885] 8542.13 8740.23 1.02319
zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6] Subtracted 3569.07 3676.7 107.63
2542 osteoclast stimulating factor 1. [swissprot;acc:q92882] Divided 4708.98 4817.39 1.02302
zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771] Subtracted 3568.99 3676.61 107.62
2543 transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545] Divided 8565.3 8760.3 1.02277
zinc finger protein 232. [swissprot;acc:q9uny5] Subtracted 3568.96 3676.57 107.61
2544 peroxiredoxin 5, mitochondrial precursor (prx-v) (peroxisomal antioxidant enzyme) (plp) (thioredoxin peroxidase pmp20) (antioxidant enzyme b166) (aoeb166) (tpx type vi) (liver tissue 2d-page spot 71b) (alu co-repressor 1) (sbbi10). [swissprot;acc:p30044] Divided 6239.69 6378.35 1.02222
zinc finger protein 99. [refseq;acc:nm_032164] Subtracted 3568.99 3676.6 107.61
2545 ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986] Divided 8285.65 8107.49 1.02197
zinc finger protein 305. [swissprot;acc:o43309] Subtracted 3568.95 3676.56 107.61
2546 dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [swissprot;acc:p36954] Divided 4763.99 4868.66 1.02197
zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028] Subtracted 3568.84 3676.43 107.59
2547 3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530] Divided 3370.46 3444.18 1.02187
zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58] Subtracted 3568.8 3676.39 107.59
2548 60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403] Divided 4725.79 4824.4 1.02087
zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022] Subtracted 3568.8 3676.38 107.58
2549 splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955] Divided 4725.79 4824.4 1.02087
zinc finger imprinted 2. [swissprot;acc:q9nzv7] Subtracted 3568.45 3675.97 107.52
2550 amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203] Divided 4725.79 4824.4 1.02087
zinc finger protein 174 (aw-1). [swissprot;acc:q15697] Subtracted 3568.18 3675.65 107.47
2551 sorting nexin 17. [swissprot;acc:q15036] Divided 4725.79 4824.4 1.02087
ubiquitin-specific protease otubain 1. [refseq;acc:nm_017670] Subtracted 7135.64 7240.5 104.86
2552 dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [swissprot;acc:p36954] 4763.99 4868.66 104.67
ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346] Divided 4884.35 4985.78 1.02077
2553 ras-related protein rab-37. [swissprot;acc:q96ax2] 3852.99 3775.86 1.02043
rho interacting protein 3. [refseq;acc:nm_015134] Subtracted 5608.38 5712.59 104.21
2554 protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6] 5608.22 5712.39 104.17
ras-related protein rab-26. [swissprot;acc:q9ulw5] Divided 3852.99 3775.86 1.02043
2555 dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]
nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594] Subtracted 5291.65 5187.78 103.87
2556 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]
shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5] Divided 4883.73 4982.88 1.0203
2557 nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594] 5291.65 5187.78 1.02002
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Subtracted 103.87
2558 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] Divided 1.02002
intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] Subtracted 103.87
2559 hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Divided 1.02002
2560 cgthba protein (-14 gene protein). [swissprot;acc:q12980] Subtracted 103.87
intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] Divided 1.02002
2561 hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500] Subtracted 103.87
hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076] Divided 1.02002
2562 cgthba protein (-14 gene protein). [swissprot;acc:q12980]
ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346] Subtracted 4884.35 4985.78 101.43
2563 adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [swissprot;acc:o00203] 6815.24 6916.14 100.9
hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500] Divided 5291.65 5187.78 1.02002
2564 ny-ren-24 antigen (fragment). [sptrembl;acc:q9y5a4] Subtracted 6815.24 6916.14 100.9
t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711] Divided 3964.71 4042.75 1.01968
2565 adapter-related protein complex 3 beta 2 subunit (beta-adaptin 3b) (ap-3 complex beta-3b subunit) (beta-3b-adaptin) (neuron-specific vesicle coat protein beta-nap). [swissprot;acc:q13367] Subtracted 6815.24 6916.14 100.9

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/