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 Network Type I Analysis

Type 1 network in which we propagated the absolute log regulation ratio abs(log(r/g)). We used the filtered lowest boundary of the confidence interval for the microarray measurement based and used the high confidence interaction map. Because type-I networks tend to favour highly connected proteins we tested a normalisation scheme in which we would run the network once with real values (the measured column) and once with simulated values where each measured point is set to 1 instead of the actual signal (the expected column). Afterwards we divided the measured value by the expected value. This normalisation scheme works to a certain extend but will lead to a variance that is directly related to the connectivity of each protein. In the end we dropped the use of Type-I networks due to the many technical problems they pose.

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Rank Gene description measured expected final Hugo

Results: HTML CSV LaTeX

Showing element 2501 to 2550 of 3206 in total

Rank	description	measured	expected	final	Hugo	
2501	SH3-CONTAINING GRB2-LIKE PROTEIN 1 (SH3 DOMAIN PROTEIN 2B) (EXTRA ELEVEN-NINETEEN LEUKEMIA FUSION GENE) (EEN) (EEN FUSION PARTNER OF MLL). [Source:SWISSPROT;Acc:Q99961]	0.172401	0.800978	0.215238121	SH3GL1	
2502	KERATIN ASSOCIATED PROTEIN 9-4; KERATIN ASSOCIATED PROTEIN 9.4. [Source:RefSeq;Acc:NM_033191]	1.02862	4.7857	0.214936164		
2503	JUNCTIONAL ADHESION MOLECULE 1 PRECURSOR (JAM) (PLATELET ADHESION MOLECULE 1) (PAM-1) (PLATELET F11 RECEPTOR). [Source:SWISSPROT;Acc:Q9Y624]	0.26445	1.23096	0.214832326	F11R	
2504	ORNITHINE DECARBOXYLASE ANTIZYME INHIBITOR. [Source:SWISSPROT;Acc:O14977]	0.174979	0.814661	0.214787501	AZIN1	
2505	ORNITHINE DECARBOXYLASE-LIKE PROTEIN (EC 4.1.1.17) (ODC-PARALOGUE) (ODC-P). [Source:SWISSPROT;Acc:Q96A70]	0.177719	0.827431	0.214784073	ADC	
2506	"PLECKSTRIN HOMOLOGY DOMAIN CONTAINING, FAMILY C (WITH FERM DOMAIN) MEMBER 1; MITOGEN INDUCIBLE 2; KINDLIN 2. [Source:RefSeq;Acc:NM_006832]"	0.0405241	0.188688	0.214767765	PLEKHC1	
2507	ALPHA-PARVIN (CALPONIN-LIKE INTEGRIN-LINKED KINASE BINDING PROTEIN) (CH-ILKBP). [Source:SWISSPROT;Acc:Q9NVD7]	0.0405241	0.188688	0.214767765		
2508	RAS SUPPRESSOR PROTEIN 1 (RSU-1) (RSP-1). [Source:SWISSPROT;Acc:Q15404]	0.214312	0.997879	0.214767522	RSU1	
2509	D(4) DOPAMINE RECEPTOR (D(2C) DOPAMINE RECEPTOR). [Source:SWISSPROT;Acc:P21917]	0.0585879	0.272797	0.214767391	DRD4	
2510	AMINOADIPATE-SEMIALDEHYDE SYNTHASE; LYSINE-KETOGLUTARATE REDUCTASE /SACCHAROPINE DEHYDROGENASE; LYSINE-2-OXOGLUTARATE REDUCTASE; AMINOADIPIC SEMIALDEHYDE SYNTHASE. [Source:RefSeq;Acc:NM_005763]	0.0833117	0.387916	0.214767372	AASS	
2511		0.0343037	0.159725	0.214767256	C20orf42	
2512	INTEGRIN-LINKED PROTEIN KINASE 1 (EC 2.7.1.-) (ILK-1) (59 KDA SERINE/THREONINE PROTEIN KINASE) (P59ILK). [Source:SWISSPROT;Acc:Q13418]	0.192216	0.894997	0.2147672	ILK	
2513	PINCH PROTEIN (PARTICULARLY INTERESTING NEW CYS-HIS PROTEIN) (LIM AND SENESCENT CELL ANTIGEN-LIKE DOMAINS 1). [Source:SWISSPROT;Acc:P48059]	0.113204	0.527101	0.214767189	LIMS1	
2514	LIM AND SENESCENT CELL ANTIGEN-LIKE DOMAINS 2; ILK-BINDING PROTEIN. [Source:RefSeq;Acc:NM_017980]	0.117844	0.548706	0.214767107	LIMS2	
2515	ESPIN. [Source:RefSeq;Acc:NM_031475]	0.0601277	0.279967	0.214767098	ESPNP	
2516	STAR-RELATED LIPID TRANSFER PROTEIN 5 (STARD5) (START DOMAIN- CONTAINING PROTEIN 5). [Source:SWISSPROT;Acc:Q9NSY2]	0.0598238	0.278552	0.214767081	STARD5	
2517		0.0598238	0.278552	0.214767081	C11orf46	
2518	RAS-GTPASE-ACTIVATING PROTEIN BINDING PROTEIN 2 (GAP SH3-DOMAIN BINDING PROTEIN 2) (G3BP-2). [Source:SWISSPROT;Acc:Q9UN86]	0.0598238	0.278552	0.214767081	G3BP2	
2519	RAS-GTPASE-ACTIVATING PROTEIN BINDING PROTEIN 1 (GAP SH3-DOMAIN BINDING PROTEIN 1) (G3BP-1). [Source:SWISSPROT;Acc:Q13283]	0.0506049	0.235627	0.214766983	G3BP1	
2520	CYTOCHROME P450 2D6 (EC 1.14.14.1) (CYPIID6) (P450-DB1) (DEBRISOQUINE 4-HYDROXYLASE). [Source:SWISSPROT;Acc:P10635]	0.0555486	0.258646	0.214766901	CYP2D6	
2521	KERATIN ASSOCIATED PROTEIN 4-12; KERATIN ASSOCIATED PROTEIN 4.12. [Source:RefSeq;Acc:NM_031854]	0.042399	0.19742	0.214765475		
2522		0.0436957	0.203458	0.21476521		
2523	STAR-RELATED LIPID TRANSFER PROTEIN 4 (STARD4) (START DOMAIN- CONTAINING PROTEIN 4). [Source:SWISSPROT;Acc:Q96DR4]	0.0433512	0.201854	0.214765127	STARD4	
2524	STAR-RELATED LIPID TRANSFER PROTEIN 6 (STARD6) (START DOMAIN- CONTAINING PROTEIN 6). [Source:SWISSPROT;Acc:P59095]	0.043878	0.204307	0.214765035	STARD6	
2525	KERATIN ASSOCIATED PROTEIN 4.9 (FRAGMENT). [Source:SPTREMBL;Acc:Q9BYQ8]	0.0383264	0.178458	0.214764258		
2526	KERATIN ASSOCIATED PROTEIN 4-14; KERATIN ASSOCIATED PROTEIN 4.14. [Source:RefSeq;Acc:NM_033059]	0.0382656	0.178175	0.214764136		
2527	KERATIN ASSOCIATED PROTEIN 4.4. [Source:RefSeq;Acc:NM_032524]	0.0320251	0.149118	0.214763476	KRTAP4-4	
2528	KERATIN ASSOCIATED PROTEIN 4-2; KERATIN ASSOCIATED PROTEIN 4.2. [Source:RefSeq;Acc:NM_033062]	0.0314375	0.146383	0.21476196		
2529	KERATIN ASSOCIATED PROTEIN 4-10; KERATIN ASSOCIATED PROTEIN 4.10. [Source:RefSeq;Acc:NM_033060]	0.0280741	0.130722	0.214761861		
2530	"KERATIN, ULTRA HIGH-SULFUR MATRIX PROTEIN A (UHS KERATIN A) (UHS KERA). [Source:SWISSPROT;Acc:P26371]"	0.0250957	0.116854	0.214761155		
2531	KERATIN ASSOCIATED PROTEIN 1-3; KERATIN ASSOCIATED PROTEIN 1.3. [Source:RefSeq;Acc:NM_030966]	0.0258656	0.120439	0.214760999		
2532	KERATIN ASSOCIATED PROTEIN 1.5. [Source:RefSeq;Acc:NM_031957]	0.0249741	0.116288	0.214760766		
2533	KERATIN ASSOCIATED PROTEIN 2-4; KERATIN ASSOCIATED PROTEIN 2.4. [Source:RefSeq;Acc:NM_033184]	0.0240826	0.112137	0.214760516		
2534	KERATIN ASSOCIATED PROTEIN 4.3 (FRAGMENT). [Source:SPTREMBL;Acc:Q9BYR4]	0.0260682	0.121383	0.214759892		
2535	"KERATIN, ULTRA HIGH-SULFUR MATRIX PROTEIN B (UHS KERATIN B) (UHS KERB). [Source:SWISSPROT;Acc:O75690]"	0.0249538	0.116194	0.214759798	KRTAP5-8	
2536	ORNITHINE DECARBOXYLASE (EC 4.1.1.17) (ODC). [Source:SWISSPROT;Acc:P11926]	0.220469	1.02669	0.214737652	ODC1	
2537	"[3-METHYL-2-OXOBUTANOATE DEHYDROGENASE [LIPOAMIDE]] KINASE, MITOCHONDRIAL PRECURSOR (EC 2.7.1.115) (BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE) (BCKDHKIN) (BCKD-KINASE). [Source:SWISSPROT;Acc:O14874]"	1.13737	5.29857	0.21465603	BCKDK	
2538	DIPEPTIDYLPEPTIDASE 10; DIPEPTIDYL PEPTIDASE IV-RELATED PROTEIN 3. [Source:RefSeq;Acc:NM_020868]	0.031831	0.148314	0.214618984	DPP10	
2539	DIPEPTIDYL AMINOPEPTIDASE-LIKE PROTEIN 6 (DIPEPTIDYLPEPTIDASE VI) (DIPEPTIDYLPEPTIDASE 6) (DIPEPTIDYL PEPTIDASE IV LIKE PROTEIN) (DIPEPTIDYL AMINOPEPTIDASE-RELATED PROTEIN) (DPPX). [Source:SWISSPROT;Acc:P42658]	0.0311751	0.145258	0.214618816	DPP6	
2540	SEPRASE (EC 3.4.21.-) (FIBROBLAST ACTIVATION PROTEIN ALPHA) (INTEGRAL MEMBRANE SERINE PROTEASE) (170-KDA MELANOMA MEMBRANE-BOUND GELATINASE). [Source:SWISSPROT;Acc:Q12884]	0.0377549	0.175918	0.214616469	FAP	
2541		0.0217565	0.101375	0.214614057		
2542	SURFEIT LOCUS PROTEIN 1. [Source:SWISSPROT;Acc:Q15526]	0.12372	0.576477	0.214613939	SURF1	
2543		0.0209707	0.0977138	0.214613494	FAM86C	
2544	COX15 HOMOLOG ISOFORM 2 PRECURSOR; CYTOCHROME C OXIDASE SUBUNIT 15; CYTOCHROME C OXIDASE ASSEMBLY PROTEIN. [Source:RefSeq;Acc:NM_004376]	0.0273323	0.127356	0.214613367	COX15	
2545		0.0273323	0.127356	0.214613367	FAM86B2	
2546	"CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX11, MITOCHONDRIAL PRECURSOR. [Source:SWISSPROT;Acc:Q9Y6N1]"	0.124724	0.581157	0.214613263	COX11	
2547	"PROTOHEME IX FARNESYLTRANSFERASE, MITOCHONDRIAL PRECURSOR (EC 2.5.1.-) (HEME O SYNTHASE). [Source:SWISSPROT;Acc:Q12887]"	0.0819968	0.382068	0.214613106	COX10	
2548	KERATIN ASSOCIATED PROTEIN 9.2. [Source:RefSeq;Acc:NM_031961]	1.11949	5.2164	0.214609693	KRTAP9-8	
2549	"[PYRUVATE DEHYDROGENASE [LIPOAMIDE]] KINASE ISOZYME 2, MITOCHONDRIAL PRECURSOR (EC 2.7.1.99) (PYRUVATE DEHYDROGENASE KINASE ISOFORM 2). [Source:SWISSPROT;Acc:Q15119]"	0.845658	3.9409	0.214584993	PDK2	
2550	"[PYRUVATE DEHYDROGENASE [LIPOAMIDE]] KINASE ISOZYME 1, MITOCHONDRIAL PRECURSOR (EC 2.7.1.99) (PYRUVATE DEHYDROGENASE KINASE ISOFORM 1). [Source:SWISSPROT;Acc:Q15118]"	0.844424	3.93515	0.214584959	PDK1	

Legend:
- Rank is the rank after comparing the two networks
- Hugo is the bloody hugo identifier as demanded by the BMC Bioinformatics idiots

- http://analysis.yellowcouch.org/