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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1225 to 1274 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	green	red	network_comparison	
1225	ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [source:swissprot;acc:p51965]	170.989	166.846	1.02483	
1226	ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [source:refseq;acc:nm_006357]	170.989	166.846	1.02483	
1227	pyrroline 5-carboxylate reductase isoform. [source:refseq;acc:nm_013328]	168.219	172.365	1.02465	
1228	glutamate--cysteine ligase regulatory subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs light chain) (glutamate--cysteine ligase modifier subunit). [source:swissprot;acc:p48507]	218.325	213.079	1.02462	
1229	glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [source:swissprot;acc:p48506]	218.325	213.079	1.02462	
1230	interleukin-4 induced protein 1 precursor (fig-1 protein). [source:swissprot;acc:q96rq9]	214.288	219.55	1.02456	
1231	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [source:swissprot;acc:q8n0y7]	207.637	212.724	1.0245	
1232	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [source:swissprot;acc:p32322]	168.417	172.543	1.0245	
1233	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [source:swissprot;acc:p18669]	207.637	212.724	1.0245	
1234	phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [source:swissprot;acc:p15259]	207.637	212.724	1.0245	
1235	keratin associated protein 9-4; keratin associated protein 9.4. [source:refseq;acc:nm_033191]	224.723	219.356	1.02447	
1236	keratin associated protein 4-10; keratin associated protein 4.10. [source:refseq;acc:nm_033060]	224.699	219.354	1.02437	
1237	keratin associated protein 4-2; keratin associated protein 4.2. [source:refseq;acc:nm_033062]	224.699	219.354	1.02437	
1238	keratin associated protein 4.3 (fragment). [source:sptrembl;acc:q9byr4]	224.699	219.354	1.02437	
1239	keratin associated protein 2-4; keratin associated protein 2.4. [source:refseq;acc:nm_033184]	224.699	219.354	1.02437	
1240	keratin associated protein 4-14; keratin associated protein 4.14. [source:refseq;acc:nm_033059]	224.7	219.354	1.02437	
1241	keratin associated protein 4.9 (fragment). [source:sptrembl;acc:q9byq8]	224.7	219.354	1.02437	
1242	keratin associated protein 4-12; keratin associated protein 4.12. [source:refseq;acc:nm_031854]	224.7	219.354	1.02437	
1243	keratin associated protein 1.5. [source:refseq;acc:nm_031957]	224.699	219.354	1.02437	
1244	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [source:swissprot;acc:p59095]	224.7	219.354	1.02437	
1245	keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [source:swissprot;acc:o75690]	224.699	219.354	1.02437	
1246	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [source:swissprot;acc:p26371]	224.699	219.354	1.02437	
1247	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [source:swissprot;acc:q9nsy2]	224.7	219.354	1.02437	
1248	keratin associated protein 4.4. [source:refseq;acc:nm_032524]	224.699	219.354	1.02437	
1249	alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [source:swissprot;acc:q9nvd7]	224.7	219.354	1.02437	
1250	pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [source:swissprot;acc:p48059]	224.7	219.354	1.02437	
1251	integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [source:swissprot;acc:q13418]	224.7	219.354	1.02437	
1252	star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [source:swissprot;acc:q96dr4]	224.7	219.354	1.02437	
1253	ras suppressor protein 1 (rsu-1) (rsp-1). [source:swissprot;acc:q15404]	224.7	219.354	1.02437	
1254	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [source:swissprot;acc:q13283]	224.7	219.354	1.02437	
1255	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [source:swissprot;acc:q9un86]	224.7	219.354	1.02437	
1256	keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	224.699	219.354	1.02437	
1257	espin. [source:refseq;acc:nm_031475]	224.7	219.354	1.02437	
1258	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [source:swissprot;acc:p10635]	224.7	219.354	1.02437	
1259	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [source:refseq;acc:nm_006832]	224.7	219.354	1.02437	
1260	lim and senescent cell antigen-like domains 2; ilk-binding protein. [source:refseq;acc:nm_017980]	224.7	219.354	1.02437	
1261	d(4) dopamine receptor (d(2c) dopamine receptor). [source:swissprot;acc:p21917]	224.7	219.354	1.02437	
1262	keratin associated protein 9.2. [source:refseq;acc:nm_031961]	224.678	219.353	1.02428	
1263	mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [source:swissprot;acc:p53778]	167.177	171.231	1.02425	
1264	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [source:swissprot;acc:q9nya1]	167.177	171.231	1.02425	
1265	udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [source:swissprot;acc:q9h3h5]	167.177	171.231	1.02425	
1266	rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [source:swissprot;acc:q96qb1]	167.177	171.231	1.02425	
1267	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [source:swissprot;acc:p49137]	167.177	171.231	1.02425	
1268	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [source:swissprot;acc:q15825]	167.177	171.231	1.02425	
1269	nitrogen fixation cluster-like. [source:refseq;acc:nm_014301]	167.177	171.231	1.02425	
1270	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [source:swissprot;acc:q9y3m8]	167.177	171.231	1.02425	
1271	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [source:swissprot;acc:q92502]	167.177	171.231	1.02425	
1272	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [source:swissprot;acc:q15822]	167.177	171.231	1.02425	
1273	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [source:refseq;acc:nm_004635]	167.177	171.231	1.02425	
1274	mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [source:swissprot;acc:q16539]	167.177	171.231	1.02425	

Legend:
- Rank is the rank after comparing the two networks
- 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/