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

Results: HTML CSV LaTeX

Showing element 1 to 26 of 26 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
red  : 219.354
network_comparison  : 1.02437

Rank	description	green
1236	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	224.699
1237	keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062]
1238	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]
1239	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
1240	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	224.7
1241	keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]
1242	keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]
1243	keratin associated protein 1.5. [refseq;acc:nm_031957]	224.699
1244	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]	224.7
1245	keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690]	224.699
1246	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]
1247	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2]	224.7
1248	keratin associated protein 4.4. [refseq;acc:nm_032524]	224.699
1249	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]	224.7
1250	pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059]
1251	integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418]
1252	star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4]
1253	ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404]
1254	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283]
1255	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]
1256	keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]	224.699
1257	espin. [refseq;acc:nm_031475]	224.7
1258	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635]
1259	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832]
1260	lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]
1261	d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917]

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.