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 [...,...].
Value Type Network Comparison Type Gene Rank description green Interaction Map Filtered network_comparison red
Results: HTML CSV LaTeX Showing element 1963 to 2012 of 7460 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
green
network_comparison
red
1461 reticulon 1 (neuroendocrine-specific protein). [swissprot;acc:q16799] 211.077 1.0196 207.019
1462 dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.61) (e2) (e2k). [swissprot;acc:p36957] 209.851 205.817
1463 pnas-18. [sptrembl;acc:q9bzu3] 164.211 1.01959 161.056
1464 poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] 213.18 1.01957 217.351
1465 mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]
1466 reticulon protein 2 (neuroendocrine-specific protein-like 1) (nsp-like protein 1) (nspli). [swissprot;acc:o75298] 211.073 207.022
1467 maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 232.983 1.01956 228.513
1468 dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442] 207.937 1.01954 212.001
1469 reticulon protein 3 (neuroendocrine-specific protein-like 2) (nsp-like protein ii) (nsplii). [swissprot;acc:o95197] 211.05 1.0195 207.013
1470 glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897] 217.199 1.0194 221.412
1471 spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623]
1472 glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]
1473 glutamyl trna synthetase. [sptrembl;acc:o14563]
1474 importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410] 214.427 1.01938 218.582
1475 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 178.438 1.0193 181.882
1476 ran-gtp binding protein (fragment). [sptrembl;acc:o60518] 214.457 1.01928 218.591
1477 transformer-2 protein homolog (tra-2 alpha). [swissprot;acc:q13595] 211.267 1.01922 215.328
1478 arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815] 211.066 215.122
1479 maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [swissprot;acc:q9nzw5] 232.855 1.0192 228.469
1480 cleavage and polyadenylation specific factor 6, 68 kd subunit; pre-mrna cleavage factor im (68kd); cleavage and polyadenylation specific factor 6, 68kd subunit; pre-mrna cleavage factor i, 68kd subunit. [refseq;acc:nm_007007] 214.55 1.01918 218.664
1481 cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661] 204.516 1.01915 208.432
1482 limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 220.15 1.0191 224.354
1483 pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177] 202.726 198.927
1484 2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]
1485 j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330] 203.989 1.01906 207.877
1486 human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]
1487 zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]
1488 human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]
1489 mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318] 209.264 1.01905 213.251
1490 protein cgi-147. [swissprot;acc:q9y3e5] 226.186 1.01903 221.961
1491 glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744] 221.839 1.01899 217.704
1492 opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982] 220.017 1.01883 224.159
1493 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] 207.988 1.01882 204.146
1494 pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559] 207.967 1.01878 204.133
1495 casein kinase i alpha s-like. [refseq;acc:nm_145203] 225.237 1.01874 229.459
1496 casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]
1497 exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400] 220.363 1.01866 224.476
1498 neurotrimin precursor (hnt). [swissprot;acc:q9p121] 219.924 1.01863 224.022
1499 transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403] 220.411 1.01859 224.509
1500 cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129] 209.52 1.01851 213.398
1501 kinesin family member c3. [refseq;acc:nm_005550] 210.838 1.01845 214.727
1502 uridine kinase-like 1. [swissprot;acc:q9nwz5] 214.149 1.01838 218.084
1503 hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043] 237.834 1.01828 242.181
1504 m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307] 254.797 1.01822 259.439
1505 protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0] 212.316 1.0181 216.158
1506 c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0] 208.339 1.01807 212.103
1507 [pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118] 209.5 1.01801 213.274
1508 [pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]
1509 alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [swissprot;acc:p42024] 221.177 1.01795 225.148
1510 beta-centractin (actin-related protein 1b) (arp1b). [swissprot;acc:p42025]

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/