MK5 Microarray Data

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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Value Type	Gene	description	Rank	Interaction Map	Network Comparison Type	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 482 to 531 of 3228 in total

Value Type  : Ranked
Interaction Map  : High confidence
Network Comparison Type  : Divided
Filtered  : 1

description	Rank	red	green	network_comparison
calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [swissprot;acc:p27824]	1910	217.48	215.256	1.01033
calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	299	268.635	243.592	1.10281
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]	298	268.632	243.588
calreticulin precursor (crp55) (calregulin) (hacbp) (erp60). [swissprot;acc:p27797]	2181	227.117	225.62	1.00664
calsyntenin-1 precursor. [swissprot;acc:o94985]	2699	188.435	188.31	1.00066
calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	2705	188.457	188.334	1.00065
calsyntenin-3 precursor. [swissprot;acc:q9bqt9]	2706	188.459	188.336
camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	1363	218.591	213.899	1.02194
camp responsive element binding protein-like 2. [refseq;acc:nm_001310]	3078	0.00001	0.00001	1
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]	2307	215.554	214.467	1.00507
camp-dependent protein kinase type ii-beta regulatory chain. [swissprot;acc:p31323]	2313	215.529	214.449	1.00504
camp-dependent protein kinase, alpha-catalytic subunit (ec 2.7.1.37) (pka c-alpha). [swissprot;acc:p17612]	2312	215.542	214.459	1.00505
camp-dependent protein kinase, beta-catalytic subunit (ec 2.7.1.37) (pka c-beta). [swissprot;acc:p22694]	2311
camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612]	2309
candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822]	1173	229.243	235.246	1.02619
carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085]	1422	203.979	208.229	1.02084
carboxypeptidase a5. [refseq;acc:nm_080385]	1417
carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086]	1418
carboxypeptidase b precursor. [refseq;acc:nm_020361]	509	177.698	190.239	1.07057
carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	717	223.121	211.685	1.05402
carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]	715
carcinoma related gene. [refseq;acc:nm_016041]	3179	0.00001	0.00001	1
carnitine o-acetyltransferase (ec 2.3.1.7) (carnitine acetylase) (cat). [swissprot;acc:p43155]	1698	217.624	214.69	1.01367
carnitine o-palmitoyltransferase ii, mitochondrial precursor (ec 2.3.1.21) (cpt ii). [swissprot;acc:p23786]	2885	0.00001	0.00001	1
cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	226	239.991	269.238	1.12187
casein kinase i alpha s-like. [refseq;acc:nm_145203]	1495	229.459	225.237	1.01874
casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]	1496
casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [swissprot;acc:p48730]	1721	227.125	224.164	1.01321
casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [swissprot;acc:p49674]	1710	227.225	224.21	1.01345
casein kinase i, gamma 1 isoform (ec 2.7.1.-) (cki-gamma 1). [swissprot;acc:q9hcp0]	2830	0.00001	0.00001	1
casein kinase i, gamma 2 isoform (ec 2.7.1.-) (cki-gamma 2). [swissprot;acc:p78368]	2986
casein kinase i, gamma 3 isoform (ec 2.7.1.-) (cki-gamma 3). [swissprot;acc:q9y6m4]	2901
casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]	936	232.473	224.372	1.03611
casein kinase ii, alpha chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19138]	863	240.194	230.957	1.03999
casein kinase ii, alpha' chain (ck ii) (ec 2.7.1.37). [swissprot;acc:p19784]	864
caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [swissprot;acc:p55210]	1292	233.942	228.46	1.024
catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798]	1834	180.409	182.459	1.01136
cathepsin b precursor (ec 3.4.22.1) (cathepsin b1) (app secretase). [swissprot;acc:p07858]	1667	214.898	211.898	1.01416
cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	1426	214.717	219.157	1.02068
cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	1425
caveolin-1. [swissprot;acc:q03135]	3099	0.00001	0.00001	1
caveolin-3 (m-caveolin). [swissprot;acc:p56539]	2779
cbf1 interacting corepressor. [refseq;acc:nm_004882]	572	227.86	213.945	1.06504
cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	762	213.256	203.237	1.0493
ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	556	207.27	194.368	1.06638
ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	36	260.532	204.309	1.27519
ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	408	255.112	234.804	1.08649
ccr4-not transcription complex, subunit 3; not3 (negative regulator of transcription 3, yeast) homolog. [refseq;acc:nm_014516]	3163	0.00001	0.00001	1
ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	1390	218.47	213.875	1.02148

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.