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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1213 to 1262 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	Hugo	description	red	green	network_comparison	
1213	COG2	conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [source:swissprot;acc:q14746]	214.364	219.759	1.02517	
1214		kinesin-like protein kif13b (kinesin-like protein gakin). [source:swissprot;acc:q9nqt8]	214.364	219.759	1.02517	
1215	DAZAP1	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [source:refseq;acc:nm_018959]	218.268	212.916	1.02514	
1216	ZMIZ1	retinoic acid induced 17; pias-like protein hzimp10. [source:refseq;acc:nm_020338]	218.269	212.918	1.02513	
1217	QRSL1	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [source:refseq;acc:nm_018292]	211.959	217.258	1.025	
1218	FAAH	fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [source:swissprot;acc:o00519]	211.959	217.258	1.025	
1219	COTL1	coactosin-like protein. [source:swissprot;acc:q14019]	211.959	217.258	1.025	
1220	UNG	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [source:swissprot;acc:p13051]	211.959	217.258	1.025	
1221	PET112L	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [source:swissprot;acc:o75879]	211.959	217.258	1.025	
1222	TPD52L1	tumor protein d53 (hd53) (d52-like 1). [source:swissprot;acc:q16890]	206.774	211.936	1.02496	
1223	TPD52	tumor protein d52 (n8 protein). [source:swissprot;acc:p55327]	206.771	211.926	1.02493	
1224	FPGS	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [source:swissprot;acc:q05932]	225.906	231.524	1.02487	
1225	UBE2E1	ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [source:swissprot;acc:p51965]	166.846	170.989	1.02483	
1226	UBE2E4P	ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [source:refseq;acc:nm_006357]	166.846	170.989	1.02483	
1227	PYCR2	pyrroline 5-carboxylate reductase isoform. [source:refseq;acc:nm_013328]	172.365	168.219	1.02465	
1228	GCLM	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]	213.079	218.325	1.02462	
1229	GCLC	glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [source:swissprot;acc:p48506]	213.079	218.325	1.02462	
1230	IL4I1	interleukin-4 induced protein 1 precursor (fig-1 protein). [source:swissprot;acc:q96rq9]	219.55	214.288	1.02456	
1231	PGAM4	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [source:swissprot;acc:q8n0y7]	212.724	207.637	1.0245	
1232	PYCR1	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [source:swissprot;acc:p32322]	172.543	168.417	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]	212.724	207.637	1.0245	
1234	PGAM2	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]	212.724	207.637	1.0245	
1235		keratin associated protein 9-4; keratin associated protein 9.4. [source:refseq;acc:nm_033191]	219.356	224.723	1.02447	
1236		keratin associated protein 4-10; keratin associated protein 4.10. [source:refseq;acc:nm_033060]	219.354	224.699	1.02437	
1237		keratin associated protein 4-2; keratin associated protein 4.2. [source:refseq;acc:nm_033062]	219.354	224.699	1.02437	
1238		keratin associated protein 4.3 (fragment). [source:sptrembl;acc:q9byr4]	219.354	224.699	1.02437	
1239		keratin associated protein 2-4; keratin associated protein 2.4. [source:refseq;acc:nm_033184]	219.354	224.699	1.02437	
1240		keratin associated protein 4-14; keratin associated protein 4.14. [source:refseq;acc:nm_033059]	219.354	224.7	1.02437	
1241		keratin associated protein 4.9 (fragment). [source:sptrembl;acc:q9byq8]	219.354	224.7	1.02437	
1242		keratin associated protein 4-12; keratin associated protein 4.12. [source:refseq;acc:nm_031854]	219.354	224.7	1.02437	
1243		keratin associated protein 1.5. [source:refseq;acc:nm_031957]	219.354	224.699	1.02437	
1244	STARD6	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [source:swissprot;acc:p59095]	219.354	224.7	1.02437	
1245	KRTAP5-8	keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [source:swissprot;acc:o75690]	219.354	224.699	1.02437	
1246		keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [source:swissprot;acc:p26371]	219.354	224.699	1.02437	
1247	STARD5	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [source:swissprot;acc:q9nsy2]	219.354	224.7	1.02437	
1248	KRTAP4-4	keratin associated protein 4.4. [source:refseq;acc:nm_032524]	219.354	224.699	1.02437	
1249		alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [source:swissprot;acc:q9nvd7]	219.354	224.7	1.02437	
1250	LIMS1	pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [source:swissprot;acc:p48059]	219.354	224.7	1.02437	
1251	ILK	integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [source:swissprot;acc:q13418]	219.354	224.7	1.02437	
1252	STARD4	star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [source:swissprot;acc:q96dr4]	219.354	224.7	1.02437	
1253	RSU1	ras suppressor protein 1 (rsu-1) (rsp-1). [source:swissprot;acc:q15404]	219.354	224.7	1.02437	
1254	G3BP1	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [source:swissprot;acc:q13283]	219.354	224.7	1.02437	
1255	G3BP2	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [source:swissprot;acc:q9un86]	219.354	224.7	1.02437	
1256		keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	219.354	224.699	1.02437	
1257	ESPNP	espin. [source:refseq;acc:nm_031475]	219.354	224.7	1.02437	
1258	CYP2D6	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [source:swissprot;acc:p10635]	219.354	224.7	1.02437	
1259	PLEKHC1	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [source:refseq;acc:nm_006832]	219.354	224.7	1.02437	
1260	LIMS2	lim and senescent cell antigen-like domains 2; ilk-binding protein. [source:refseq;acc:nm_017980]	219.354	224.7	1.02437	
1261	DRD4	d(4) dopamine receptor (d(2c) dopamine receptor). [source:swissprot;acc:p21917]	219.354	224.7	1.02437	
1262	KRTAP9-8	keratin associated protein 9.2. [source:refseq;acc:nm_031961]	219.353	224.678	1.02428	

Legend:
- Rank is the rank after comparing the two networks
- Hugo is the HGNC identifier if it exists
- 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/