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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description Rank Value Type Gene Interaction Map Network Comparison Type Filtered network_comparison red green
Results: HTML CSV LaTeX Showing element 451 to 500 of 3228 in total
Value Type  : Measured
Interaction Map  : High confidence
Network Comparison Type  : Divided
Filtered  : 1
description
Rank
network_comparison
red
green
bup protein. [refseq;acc:nm_012071] 2911 1 0.00001 0.00001
bystin. [swissprot;acc:q13895] 950 1.09718 4280.99 4697.02
c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586] 2102 1.05493 4860.34 5127.3
c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6] 1962 1.06001 5941.24 6297.78
c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] 1638 1.07002 9895.77 9248.18
c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] 1630 1.07018 9903.22 9253.79
c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596] 488 1.14483 10872.4 12447
c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319] 1528 1.07347 5869.97 6301.24
c18b11 homolog (44.9kd). [refseq;acc:nm_152260] 707 1.11781 5317.78 5944.25
c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0] 2120 1.05434 6951.29 7329
c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 2174 1.05152 3641.45 3463.02
c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5] 2421 1.0376 7355.46 7088.93
ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793] 874 1.10278 9921.43 10941.2
caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844] 941 1.09761 4970.21 5455.34
cab2. [refseq;acc:nm_033419] 2618 1.01485 5599.85 5683
cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] 1217 1.08557 6021.21 6536.45
cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517] 1723 1.06827 5458.12 5830.76
calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805] 1356 1.07881 5657.71 6103.57
calcipressin 2 (thyroid hormone-responsive protein zaki-4) (down syndrome candidate region 1-like 1) (myocyte-enriched calcineurin interacting protein 2) (mcip2). [swissprot;acc:q14206] 1360 1.07879 5657.72 6103.52
calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8] 1361
calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [swissprot;acc:o75746] 1913 1.06246 6858.84 7287.27
calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [swissprot;acc:q9ujs0] 1916
calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] 440 1.15038 6251.91 7192.08
calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194] 606 1.13121 6148.94 6955.76
calcium/calmodulin-dependent protein kinase type ii alpha chain (ec 2.7.1.123) (cam-kinase ii alpha chain) (cam kinase ii alpha subunit) (camk-ii alpha subunit). [swissprot;acc:q9uqm7] 1385 1.07829 6079.45 6555.4
calcium/calmodulin-dependent protein kinase type ii beta chain (ec 2.7.1.123) (cam-kinase ii beta chain) (cam kinase ii beta subunit) (camk-ii beta subunit). [swissprot;acc:q13554] 1386 6079.46 6555.41
calcium/calmodulin-dependent protein kinase type ii delta chain (ec 2.7.1.123) (cam-kinase ii delta chain) (cam kinase ii delta subunit) (camk-ii delta subunit). [swissprot;acc:q13557] 1376
calcium/calmodulin-dependent protein kinase type ii gamma chain (ec 2.7.1.123) (cam-kinase ii gamma chain) (cam kinase ii gamma subunit) (camk-ii gamma subunit) (fragment). [swissprot;acc:q13555] 1375 6079.45 6555.4
calcyphosine. [swissprot;acc:q13938] 365 1.17334 5189 6088.47
calmegin precursor. [swissprot;acc:o14967] 1473 1.0753 5910.06 6355.08
calmodulin. [swissprot;acc:p02593] 2928 1 0.00001 0.00001
calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [swissprot;acc:p27824] 1474 1.0753 5910.06 6355.08
calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] 2384 1.04129 4164.96 4336.92
calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655] 2383 1.04136 4164.76 4337.01
calreticulin precursor (crp55) (calregulin) (hacbp) (erp60). [swissprot;acc:p27797] 1526 1.0735 5369.1 5763.72
calsyntenin-1 precursor. [swissprot;acc:o94985] 536 1.13826 10603.5 12069.5
calsyntenin-2 precursor. [swissprot;acc:q9h4d0] 541 1.13819 10600.3 12065.2
calsyntenin-3 precursor. [swissprot;acc:q9bqt9] 543 10599.9 12064.7
camp response element-binding protein cre-bpa. [refseq;acc:nm_004904] 1439 1.07683 5658.8 6093.56
camp responsive element binding protein-like 2. [refseq;acc:nm_001310] 3078 1 0.00001 0.00001
camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [swissprot;acc:p10644] 3089
camp-dependent protein kinase type ii-alpha regulatory chain. [swissprot;acc:p13861] 1710 1.06857 5916.13 6321.77
camp-dependent protein kinase type ii-beta regulatory chain. [swissprot;acc:p31323] 1715 1.06849 5918.48 6323.83
camp-dependent protein kinase, alpha-catalytic subunit (ec 2.7.1.37) (pka c-alpha). [swissprot;acc:p17612] 1714 1.06853 5917.23 6322.73
camp-dependent protein kinase, beta-catalytic subunit (ec 2.7.1.37) (pka c-beta). [swissprot;acc:p22694] 1713
camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612] 1712
candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822] 2025 1.05781 4813.13 5091.36
carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] 2351 1.04406 8353.97 8001.45
carboxypeptidase a5. [refseq;acc:nm_080385] 2344
carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086] 2345

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/