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 851 to 900 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
426 actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391] Low confidence 205.501 198.528 1.03512
dynactin 4. [refseq;acc:nm_032486] High confidence 233.142 252.253 1.08197
427 cd82 antigen (inducible membrane protein r2) (c33 antigen) (ia4) (metastasis suppressor kangai 1) (suppressor of tumorigenicity-6). [swissprot;acc:p27701] Low confidence 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
428 atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] 253.852 234.808 1.0811
beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Low confidence 194.137 187.552 1.03511
429 dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658] 202.75 195.879 1.03508
polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467] High confidence 239.709 259.038 1.08064
430 dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868] Low confidence 202.75 195.88 1.03507
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] High confidence 227.748 210.888 1.07995
431 seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884] Low confidence 202.752 195.882 1.03507
trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169] High confidence 236.245 255.113 1.07987
432 endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249] 212.547 229.411 1.07934
nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177] Low confidence 206.507 199.515 1.03504
433 programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] High confidence 212.547 229.411 1.07934
voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] Low confidence 210.292 203.181 1.035
434 egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215] 214.527 222.034 1.03499
t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] High confidence 212.547 229.411 1.07934
435 polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 221.522 205.286 1.07909
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119] Low confidence 202.782 195.927 1.03499
436 paxillin. [swissprot;acc:p49023] High confidence 221.522 205.286 1.07909
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118] Low confidence 202.782 195.928 1.03498
437 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] 207.064 200.076 1.03493
cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642] High confidence 209.921 226.459 1.07878
438 n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 233.723 216.674 1.07869
rna polymerase ii elongation factor ell (eleven-nineteen lysine-rich leukemia protein). [swissprot;acc:p55199] Low confidence 198.572 205.504 1.03491
439 40s ribosomal protein s9. [swissprot;acc:p46781] High confidence 238.986 257.784 1.07866
beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Low confidence 194.237 187.689 1.03489
440 highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101] High confidence 231.802 249.983 1.07843
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] Low confidence 203.045 196.204 1.03487
441 cytochrome p450 4b1 (ec 1.14.14.1) (cypivb1) (p450-hp). [swissprot;acc:p13584]
grb2-related adaptor protein. [swissprot;acc:q13588] High confidence 223.457 207.222 1.07835
442 e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140] 223.802 207.55 1.0783
formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892] Low confidence 201.424 194.652 1.03479
443 huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404] 201.418 194.664 1.0347
neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117] High confidence 223.79 207.539 1.0783
444 neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] 223.801 207.549
u5 snrnp-associated 102 kda protein (u5-102 kda protein). [swissprot;acc:o94906] Low confidence 207.002 200.066 1.03467
445 neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903] High confidence 223.801 207.549 1.0783
serologically defined colon cancer antigen 16. [refseq;acc:nm_006649] Low confidence 206.703 199.782 1.03464
446 f16601_1, partial cds (fragment). [sptrembl;acc:o75274]
growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354] High confidence 224.049 207.785 1.07827
447 gene amplified in squamous cell carcinoma 1. [refseq;acc:nm_015061] Low confidence 206.703 199.782 1.03464
serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955] High confidence 224.049 207.785 1.07827
448 dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5] Low confidence 203.074 196.277 1.03463
microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] High confidence 228.468 246.338 1.07822
449 bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001] 228.463 246.33 1.07821
cytochrome p450 4a11 precursor (ec 1.14.15.3) (cypiva11) (fatty acid omega-hydroxylase) (p-450 hk omega) (lauric acid omega-hydroxylase) (cyp4aii) (p450-hl-omega). [swissprot;acc:q02928] Low confidence 203.077 196.283 1.03461
450 hpaii tiny fragments locus 9c. [refseq;acc:nm_022727] 207.786 200.839 1.03459
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] High confidence 235.94 218.837 1.07815

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/