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 1663 to 1712 of 16578 in total
Value Type  : Ranked
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
red
green
network_comparison
416 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] Subtracted High confidence 200.791 183.66 17.131
voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359] Low confidence 210.251 203.241 7.01
417 cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070] Divided 211.182 203.991 1.03525
set domain and mariner transposase fusion gene. [refseq;acc:nm_006515] High confidence 233.539 253.197 1.08417
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] Subtracted 235.94 218.837 17.103
tho complex 3. [refseq;acc:nm_032361] Low confidence 186.383 179.374 7.009
418 cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257] Divided High confidence 233.539 253.197 1.08417
luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] Subtracted Low confidence 201.095 194.099 6.996
n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] High confidence 233.723 216.674 17.049
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537] Divided Low confidence 203.448 196.524 1.03523
419 low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] High confidence 233.539 253.197 1.08417
luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Subtracted Low confidence 201.123 194.127 6.996
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] High confidence 235.922 218.925 16.997
[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] Divided Low confidence 202.714 195.825 1.03518
420 cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155] High confidence 233.539 253.197 1.08417
cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574] Subtracted 238.704 255.68 16.976
nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177] Low confidence 206.507 199.515 6.992
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Divided 201.134 194.302 1.03516
421 adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851] Subtracted 207.064 200.076 6.988
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] High confidence 238.704 255.68 16.976
tetraspan net-5. [swissprot;acc:o75954] Divided Low confidence 197.897 204.852 1.03514
tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] High confidence 223.202 205.9 1.08403
422 ras-related protein rab-37. [swissprot;acc:q96ax2] 240.287 260.193 1.08284
senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493] Subtracted 238.704 255.68 16.976
u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0] Low confidence 202.074 195.097 6.977
zinc finger protein 258. [refseq;acc:nm_145310] Divided 205.501 198.528 1.03512
423 oligophrenin 1. [swissprot;acc:o60890] Subtracted High confidence 238.704 255.68 16.976
ras-related protein rab-26. [swissprot;acc:q9ulw5] Divided 240.287 260.193 1.08284
zinc finger protein 258. [refseq;acc:nm_145310] Subtracted Low confidence 205.501 198.528 6.973
zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202] Divided 1.03512
424 dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387] High confidence 240.287 260.193 1.08284
nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4] Subtracted 251.83 234.951 16.879
zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202] Low confidence 205.501 198.528 6.973
zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095] Divided 1.03512
425 endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249] Subtracted High confidence 212.547 229.411 16.864
max protein. [swissprot;acc:p25912] Divided 227.828 210.561 1.082
zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7] Low confidence 205.501 198.528 1.03512
zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095] Subtracted 6.973
426 actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391] Divided 1.03512
dynactin 4. [refseq;acc:nm_032486] High confidence 233.142 252.253 1.08197
programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] Subtracted 212.547 229.411 16.864
zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7] Low confidence 205.501 198.528 6.973
427 actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]
cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701] Divided 197.9 204.85 1.03512
dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388] High confidence 239.977 259.525 1.08146
t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] Subtracted 212.547 229.411 16.864
428 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] Divided 253.852 234.808 1.0811
beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Low confidence 194.137 187.552 1.03511
serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172] Subtracted 203.463 196.495 6.968
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] High confidence 227.748 210.888 16.86

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/