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.

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

Results: HTML CSV LaTeX

Showing element 1451 to 1500 of 3228 in total

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

description	Rank	red	green	network_comparison
jun dimerization protein. [refseq;acc:nm_130469]	43	204.641	160.957	1.2714
junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	907	223.906	215.653	1.03827
junctional adhesion molecule 1 precursor (jam) (platelet adhesion molecule 1) (pam-1) (platelet f11 receptor). [swissprot;acc:q9y624]	2638	204.911	205.168	1.00125
junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	74	288	362	1.25694
junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	73
kappa b-ras 1. [refseq;acc:nm_020345]	1161	220.758	215.097	1.02632
karyopherin beta 2b, transportin; importin 3. [refseq;acc:nm_013433]	1666	218.679	215.612	1.01422
katanin p60 subunit a 1. [refseq;acc:nm_007044]	414	232.431	252.238	1.08522
katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	415	232.382	252.166	1.08514
kccr13l. [refseq;acc:nm_139179]	2344	219.878	218.893	1.0045
kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [swissprot;acc:q14145]	1892	233.828	231.395	1.01051
kelch-like protein 8. [swissprot;acc:q9p2g9]	2219	221.509	220.108	1.00637
keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	1256	219.354	224.699	1.02437
keratin associated protein 1.5. [refseq;acc:nm_031957]	1243
keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]	1239
keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	1236
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]	1242		224.7
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	1240
keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062]	1237		224.699
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	1238
keratin associated protein 4.4. [refseq;acc:nm_032524]	1248
keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]	1241		224.7
keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191]	1235	219.356	224.723	1.02447
keratin associated protein 9.2. [refseq;acc:nm_031961]	1262	219.353	224.678	1.02428
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]	1246	219.354	224.699	1.02437
keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690]	1245
ketohexokinase (ec 2.7.1.3) (hepatic fructokinase). [swissprot;acc:p50053]	1837	218.984	221.446	1.01124
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	114	332.874	267.246	1.24557
kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	113
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	115
kh-type splicing regulatory protein (fuse binding protein 2); kh-type splicing regulatory protein (fuse-binding protein 2). [refseq;acc:nm_003685]	2650	217.188	216.942	1.00113
kiaa1194. [refseq;acc:nm_015455]	3061	0.00001	0.00001	1
kidney and liver proline oxidase 1. [refseq;acc:nm_021232]	1997	204.651	202.759	1.00933
kinesin family member c3. [refseq;acc:nm_005550]	1501	214.727	210.838	1.01845
kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [swissprot;acc:p33176]	2482	218.093	218.72	1.00287
kinesin heavy chain isoform 5c (kinesin heavy chain neuron-specific 2). [swissprot;acc:o60282]	2483
kinesin light chain 1 (klc 1). [swissprot;acc:q07866]	2485
kinesin light chain 2 (klc 2). [swissprot;acc:q9h0b6]	2481
kinesin protein. [refseq;acc:nm_032559]	1196	224.858	219.264	1.02551
kinesin-like protein kif13a (kinesin-like protein rbkin). [swissprot;acc:q9h1h9]	1212	214.364	219.759	1.02517
kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]	1214
kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139]	1210	224.764	219.241	1.02519
kinesin-like protein kif23 (mitotic kinesin-like protein-1) (kinesin- like protein 5). [swissprot;acc:q02241]	2567	219.907	220.267	1.00164
kinesin-like protein kif3b (microtubule plus end-directed kinesin motor 3b) (hh0048). [swissprot;acc:o15066]	2253	219.047	220.371	1.00604
kinesin-like protein kif3c. [swissprot;acc:o14782]	2248	219.045	220.377	1.00608
kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042]	707	220.438	209.118	1.05413
krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [swissprot;acc:q13887]	461	223.648	207.62	1.0772
kruppel-related zinc finger protein hckrox. [refseq;acc:nm_015872]	2445	206.088	206.756	1.00324
kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	144	265.686	319.651	1.20312
kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	146	265.632	319.531	1.20291

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.