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.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1262 to 1311 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
631 kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042] High confidence 6228.39 7013.19 1.126
632 disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]
estradiol 17 beta-dehydrogenase 7 (ec 1.1.1.62) (17-beta-hsd 7) (17- beta-hydroxysteroid dehydrogenase 7). [swissprot;acc:p56937] Low confidence 8315.33 8688.21 1.04484
633 ferritin light chain (ferritin l subunit). [swissprot;acc:p02792] High confidence 6228.39 7013.19 1.126
tpa regulated locus; uncharacterized hypothalamus protein htmp. [refseq;acc:nm_018475] Low confidence 8331.28 8704.52 1.0448
634 ba526d8.2 (novel protein similar to kiaa1074). [sptrembl;acc:q9h560] 7262.59 7587.85 1.04479
disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0] High confidence 6228.39 7013.19 1.126
635 ankyrin repeat domain protein 7 (testis-specific protein tsa806). [swissprot;acc:q92527] Low confidence 7262.13 7587.39 1.04479
ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8] High confidence 6228.97 7013.53 1.12595
636 breast cancer antigen ny-br-1. [refseq;acc:nm_052997] Low confidence 7262.73 7587.97 1.04478
proteasome subunit alpha type 5 (ec 3.4.25.1) (proteasome zeta chain) (macropain zeta chain) (multicatalytic endopeptidase complex zeta chain). [swissprot;acc:p28066] High confidence 5713.41 6432.92 1.12593
637 putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] 7756.51 8731.76 1.12573
ubiquitin-conjugating enzyme e2 m (ec 6.3.2.19) (ubiquitin-protein ligase m) (ubiquitin carrier protein m) (nedd8-conjugating enzyme ubc12). [swissprot;acc:o76069] Low confidence 8025.21 8384.21 1.04473
638 nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531] High confidence 7755.69 8730.74 1.12572
tryptophan 2,3-dioxygenase (ec 1.13.11.11) (tryptophan pyrrolase) (tryptophanase) (tryptophan oxygenase) (tryptamin 2,3-dioxygenase) (trpo). [swissprot;acc:p48775] Low confidence 7720 8065.07 1.0447
639 nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] 7686.11 8029.54 1.04468
nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [swissprot;acc:p22392] High confidence 7753.59 8728.13 1.12569
640 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 4811.02 5414.64 1.12547
membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835] Low confidence 6586.97 6881.19 1.04467
641 cox15 homolog isoform 2 precursor; cytochrome c oxidase subunit 15; cytochrome c oxidase assembly protein. [refseq;acc:nm_004376] 8114.52 8476.88 1.04466
peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911] High confidence 4810.85 5414.21 1.12542
642 atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2] 5414.23
heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082] Low confidence 7448.7 7781.27 1.04465
643 brain protein 44-like protein (hspc040) (cgi-129) (pnas-115). [swissprot;acc:q9y5u8] 7652.02 7993.59 1.04464
polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025] High confidence 4810.85 5414.23 1.12542
644 cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701] 5414.22
ubiquitin carboxyl-terminal hydrolase 2 (ec 3.1.2.15) (ubiquitin thiolesterase 2) (ubiquitin-specific processing protease 2) (deubiquitinating enzyme 2) (41 kda ubiquitin-specific protease). [swissprot;acc:o75604] Low confidence 7689.01 8031.57 1.04455
645 glutathione s-transferase theta 1 (ec 2.5.1.18) (gst class-theta) (glutathione transferase t1-1). [swissprot;acc:p30711] High confidence 4810.71 5413.89 1.12538
small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765] Low confidence 8632.5 9016.86 1.04452
646 enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084] 7808.99 8156 1.04444
fibrillarin (34 kda nucleolar scleroderma antigen). [swissprot;acc:p22087] High confidence 4019.88 4522.61 1.12506
647 short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4] 5167.88 4594.43 1.12481
zinc binding alcohol dehydrogenase, domain containing 1. [refseq;acc:nm_152444] Low confidence 8714.35 9101.44 1.04442
648 nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] 7692.23 8033.82 1.04441
splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874] High confidence 5248.07 5901.72 1.12455
649 dnaj homolog subfamily a member 1 (heat shock 40 kda protein 4) (dnaj protein homolog 2) (hsj-2) (hsdj). [swissprot;acc:p31689] Low confidence 8518.43 8896.58 1.04439
splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459] High confidence 5248.07 5901.72 1.12455
650 golgi reassembly stacking protein 2; golgi reassembly stacking protein 2, 55 kda. [refseq;acc:nm_015530] 8362.81 9402.7 1.12435
protein strait11499. [swissprot;acc:q9npa3] Low confidence 8315.58 8683.68 1.04427
651 ebp50-pdz interactor of 64 kda (epi64 protein). [swissprot;acc:q9bxi6] High confidence 5168.43 4597.44 1.1242
vesicle-fusing atpase (ec 3.6.4.6) (vesicular-fusion protein nsf) (n- ethylmaleimide sensitive fusion protein) (nem-sensitive fusion protein). [swissprot;acc:p46459] Low confidence 8478.16 8852.82 1.04419
652 short transient receptor potential channel 5 (trpc5) (htrp-5) (htrp5). [swissprot;acc:q9ul62] High confidence 5168.43 4597.44 1.1242
xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736] Low confidence 7476.85 7807.07 1.04417
653 methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] High confidence 5560.06 6248.27 1.12378
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] Low confidence 6996.07 7305.01 1.04416
654 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] High confidence 4088.63 4593.43 1.12346
sodium/hydrogen exchanger 6 (na(+)/h(+) exchanger 6) (nhe-6). [swissprot;acc:q92581] Low confidence 7171.77 7488.23 1.04413
655 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9] High confidence 4088.63 4593.43 1.12346
senescence downregulated leo1-like. [refseq;acc:nm_138792] Low confidence 7171.77 7488.23 1.04413
656 apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772] High confidence 6139.04 6893.7 1.12293

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/