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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 425 to 474 of 3228 in total
Value Type	Ranked
Network Comparison Type Divided
Interaction Map High confidence
Filtered 1
Rank description red green network_comparison 425 max protein. [source:swissprot;acc:p25912] 227.828 210.561 1.082 426 dynactin 4. [source:refseq;acc:nm_032486] 233.142 252.253 1.08197 427 dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [source:swissprot;acc:p19388] 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. [source:refseq;acc:nm_024072] 253.852 234.808 1.0811 429 polymerase (rna) iii (dna directed) (32kd). [source:refseq;acc:nm_006467] 239.709 259.038 1.08064 430 u6 snrna-associated sm-like protein lsm5. [source:swissprot;acc:q9y4y9] 227.748 210.888 1.07995 431 trub pseudouridine (psi) synthase homolog 1. [source:refseq;acc:nm_139169] 236.245 255.113 1.07987 432 endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [source:swissprot;acc:q14249] 212.547 229.411 1.07934 433 programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [source:swissprot;acc:o95831] 212.547 229.411 1.07934 434 t-box transcription factor tbx6 (t-box protein 6). [source:swissprot;acc:o95947] 212.547 229.411 1.07934 435 polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [source:refseq;acc:nm_007195] 221.522 205.286 1.07909 436 paxillin. [source:swissprot;acc:p49023] 221.522 205.286 1.07909 437 cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [source:swissprot;acc:q15642] 209.921 226.459 1.07878 438 n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [source:swissprot;acc:p41227] 233.723 216.674 1.07869 439 40s ribosomal protein s9. [source:swissprot;acc:p46781] 238.986 257.784 1.07866 440 highly expressed in cancer, rich in leucine heptad repeats. [source:refseq;acc:nm_006101] 231.802 249.983 1.07843 441 grb2-related adaptor protein. [source:swissprot;acc:q13588] 223.457 207.222 1.07835 442 e2a-pbx1-associated protein; putative 47 kda protein. [source:refseq;acc:nm_020140] 223.802 207.55 1.0783 443 neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [source:refseq;acc:nm_145117] 223.79 207.539 1.0783 444 neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [source:refseq;acc:nm_020443] 223.801 207.549 1.0783 445 neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [source:refseq;acc:nm_014903] 223.801 207.549 1.0783 446 growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [source:swissprot;acc:p29354] 224.049 207.785 1.07827 447 serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [source:swissprot;acc:p51955] 224.049 207.785 1.07827 448 microtubule-actin crosslinking factor 1, isoform 4. [source:swissprot;acc:q96pk2] 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). [source:swissprot;acc:q03001] 228.463 246.33 1.07821 450 signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458] 235.94 218.837 1.07815 451 polymerase (rna) iii (dna directed) (62kd). [source:refseq;acc:nm_006468] 239.092 257.705 1.07785 452 ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [source:sptrembl;acc:q9nu36] 224.161 207.972 1.07784 453 u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [source:swissprot;acc:p09661] 224.161 207.972 1.07784 454 40s ribosomal protein s26. [source:swissprot;acc:p02383] 210.224 226.578 1.07779 455 mitochondrial import inner membrane translocase subunit tim22. [source:swissprot;acc:q9y584] 210.225 226.578 1.07779 456 atp synthase mitochondrial f1 complex assembly factor 2. [source:refseq;acc:nm_145691] 210.225 226.578 1.07779 457 ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [source:swissprot;acc:p14927] 210.225 226.578 1.07779 458 signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458] 235.922 218.925 1.07764 459 bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [source:swissprot;acc:o95817] 233.529 216.737 1.07748 460 splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [source:swissprot;acc:q15428] 223.648 207.62 1.0772 461 krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [source:swissprot;acc:q13887] 223.648 207.62 1.0772 462 mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [source:refseq;acc:nm_032390] 254.434 236.224 1.07709 463 dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [source:swissprot;acc:q9h1d9] 238.921 257.327 1.07704 464 ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [source:sptrembl;acc:q96lh6] 210.578 226.764 1.07686 465 neuronal acetylcholine receptor protein, alpha-7 chain precursor. [source:swissprot;acc:p36544] 248.152 267.226 1.07686 466 adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [source:swissprot;acc:o43306] 248.152 267.226 1.07686 467 adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [source:swissprot;acc:o95622] 248.152 267.226 1.07686 468 leucine-rich repeat-containing protein 15 precursor (hlib). [source:swissprot;acc:q8tf66] 248.152 267.226 1.07686 469 fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [source:refseq;acc:nm_015322] 248.152 267.226 1.07686 470 leucine-rich repeat protein lrrc3 precursor. [source:swissprot;acc:q9by71] 248.152 267.226 1.07686 471 laminin gamma-1 chain precursor (laminin b2 chain). [source:swissprot;acc:p11047] 248.152 267.226 1.07686 472 thymic stromal co-transporter. [source:refseq;acc:nm_033051] 248.152 267.226 1.07686 473 pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [source:refseq;acc:nm_015629] 225.661 209.651 1.07637 474 potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [source:swissprot;acc:p16389] 226.789 210.818 1.07576 Legend: - Rank is the rank after comparing the two networks - 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/