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

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.

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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1713 to 1762 of 3228 in total

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

description	Rank	network_comparison	red	green
molybdenum cofactor synthesis protein 2 large subunit (molybdopterin synthase large subunit) (mpt synthase large subunit) (mocs2b) (moco1- b). [swissprot;acc:o96007]	2662	1.00107	204.768	204.549
molybdenum cofactor synthesis protein 3 (molybdopterin synthase sulfurylase) (mpt synthase sulfurylase). [swissprot;acc:o95396]	2667
mondoa. [refseq;acc:nm_014938]	2800	1	0.00001	0.00001
monoglyceride lipase; lysophospholipase-like. [refseq;acc:nm_007283]	2560	1.00175	202.395	202.042
mosaic protein lgn. [swissprot;acc:p81274]	158	1.19466	249.663	298.263
mothers against decapentaplegic homolog 1 (smad 1) (mothers against dpp homolog 1) (mad-related protein 1) (transforming growth factor- beta signaling protein-1) (bsp-1) (hsmad1) (jv4-1). [swissprot;acc:q15797]	2373	1.004	212.724	213.574
mothers against decapentaplegic homolog 2 (smad 2) (mothers against dpp homolog 2) (mad-related protein 2) (hmad-2) (jv18-1) (hsmad2). [swissprot;acc:q15796]	2372
mothers against decapentaplegic homolog 3 (smad 3) (mothers against dpp homolog 3) (mad3) (hmad-3) (mmad3) (jv15-2) (hsmad3). [swissprot;acc:q92940]	2375
mothers against decapentaplegic homolog 4 (smad 4) (mothers against dpp homolog 4) (deletion target in pancreatic carcinoma 4) (hsmad4). [swissprot;acc:q13485]	1440	1.02015	225.039	229.573
mothers against decapentaplegic homolog 5 (smad 5) (mothers against dpp homolog 5) (smad5) (hsmad5) (jv5-1). [swissprot;acc:q99717]	2382	1.004	212.724	213.574
mothers against decapentaplegic homolog 9 (smad 9) (mothers against dpp homolog 9) (smad9) (madh6). [swissprot;acc:o15198]	2381
mothers against decapentaplegic homolog interacting protein (madh-interacting protein) (smad anchor for receptor activation) (receptor activation anchor) (hsara) (novel serine protease) (nsp). [swissprot;acc:o95405]	2887	1	0.00001	0.00001
mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	264	1.11394	219.421	196.978
mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406]	1578	1.01645	222.585	218.982
mstp028 protein. [refseq;acc:nm_031954]	1197	1.02548	219.042	213.6
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]	1465	1.01957	217.351	213.18
multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234]	741	1.0512	223.58	235.027
multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]	774	1.04854	225.996	215.535
multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [swissprot;acc:q13155]	1867	1.01086	203.071	200.89
multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	295	1.103	223.273	202.423
musashi 1. [refseq;acc:nm_002442]	193	1.14055	227.491	199.458
musashi 2 isoform a. [refseq;acc:nm_138962]	192
muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	398	1.0893	218.818	238.358
muts protein homolog 4. [swissprot;acc:o15457]	3194	1	0.00001	0.00001
muts protein homolog 5. [swissprot;acc:o43196]	3148
my016 protein. [sptrembl;acc:q9h3k6]	1451	1.01978	224.755	229.2
myb proto-oncogene protein (c-myb). [swissprot;acc:p10242]	1541	1.01714	222.672	218.92
myb-related protein a (a-myb). [swissprot;acc:p10243]	1548	1.01696	222.512	218.802
myb-related protein b (b-myb). [swissprot;acc:p10244]	1547	1.01699	222.541	218.823
myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	893	1.03903	227.585	219.037
myelin gene expression factor 2. [refseq;acc:nm_016132]	340	1.09811	235.383	258.476
myelin p2 protein. [swissprot;acc:p02689]	2218	1.00637	221.509	220.108
myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]	3000	1	0.00001	0.00001
myo-inositol 1-phosphate synthase a1. [refseq;acc:nm_016368]	2290	1.00527	200.158	201.213
myofibrillogenesis regulator 1; trans-activated by hepatitis c virus core protein 2; likely ortholog of mouse brain protein 17. [refseq;acc:nm_022572]	1643	1.01455	194.476	197.305
myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	215	1.125	112	126
myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	221
myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	219
myosin heavy chain, nonmuscle type a (cellular myosin heavy chain, type a) (nonmuscle myosin heavy chain-a) (nmmhc-a). [swissprot;acc:p35579]	3140	1	0.00001	0.00001
myosin heavy chain, nonmuscle type b (cellular myosin heavy chain, type b) (nonmuscle myosin heavy chain-b) (nmmhc-b). [swissprot;acc:p35580]	2988
myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	220	1.125	112	126
myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	218
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	223
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	216
myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]	217
myosin heavy chain, smooth muscle isoform (smmhc). [swissprot;acc:p35749]	2985	1	0.00001	0.00001
myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	1764	1.01238	233.45	230.595
myosin light chain 1, skeletal muscle isoform (mlc1f) (a1 catalytic) (alkali). [swissprot;acc:p05976]	1760
myosin light chain 1, slow-twitch muscle a isoform (mlc1sa) (alkali). [swissprot;acc:p14649]	1763
myosin light chain 1, slow-twitch muscle b/ventricular isoform (mlc1sb) (alkali). [swissprot;acc:p08590]	1761

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.