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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 425 to 474 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
activin receptor type i precursor (ec 2.7.1.37) (actr-i) (serine/threonine-protein kinase receptor r1) (skr1) (activin receptor-like kinase 2) (alk-2) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:q04771]	3050	ACVR1	High confidence	0.00001	0.00001	1
acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]	2498	NDUFAB1		194.527	195.08	1.00284
	2823		Low confidence	196.586	193.252	1.01725
acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310]	1413	ACADM	High confidence	206.102	210.42	1.02095
	1757		Low confidence	202.898	198.864	1.02029
acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954]	2019	no value	High confidence	215.799	213.865	1.00904
	3051		Low confidence	202.617	199.311	1.01659
acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	733	ACADVL	High confidence	164	155.961	1.05154
	853		Low confidence	199.788	194.759	1.02582
acyl-coa desaturase (ec 1.14.19.1) (stearoyl-coa desaturase) (fatty acid desaturase) (delta(9)-desaturase). [swissprot;acc:o00767]	4723	SCD		196.91	195.824	1.00555
acyl-coa-binding protein (acbp) (diazepam binding inhibitor) (dbi) (endozepine) (ep). [swissprot;acc:p07108]	1698	DBI		201.941	197.873	1.02056
acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [swissprot;acc:q15067]	1697	ACOX1
	2643		High confidence	194.097	194.328	1.00119
acyl-coenzyme a oxidase 2, peroxisomal (ec 1.3.3.6) (branched-chain acyl-coa oxidase) (brcacox) (trihydroxycoprostanoyl-coa oxidase) (thccox) (thca-coa oxidase). [swissprot;acc:q99424]	2404	ACOX2		193.389	194.105	1.0037
	2754		Low confidence	196.532	193.162	1.01745
acyl-coenzyme a oxidase 3, peroxisomal (ec 1.3.3.6) (pristanoyl-coa oxidase). [swissprot;acc:o15254]	3892	ACOX3		199.996	197.485	1.01271
ad-003 protein. [refseq;acc:nm_014064]	3670	C9orf32		203.065	200.281	1.0139
ad023 protein. [refseq;acc:nm_020679]	3422	MIF4GD		202.056	199.025	1.01523
ad037 protein isoform a. [refseq;acc:nm_032023]	4059	RASSF4		202.985	200.731	1.01123
ad24 protein. [refseq;acc:nm_022451]	505	NOC3L	High confidence	251.334	234.672	1.071
	947		Low confidence	203.472	198.533	1.02488
adam-ts related protein 1 isoform 1; adam-ts related protein 1; thrombospondin; punctin. [refseq;acc:nm_139238]	1620	no value		203.893	199.732	1.02083
adam-tsl3 precursor (fragment). [sptrembl;acc:p82987]	1623	ADAMTSL3		203.903	199.748	1.0208
adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [swissprot;acc:q9p2n4]	2481	ADAMTS9		203.369	199.724	1.01825
	2516		High confidence	215.835	216.341	1.00234
adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567]	458	AP1B1	Low confidence	206.948	200.058	1.03444
	1586		High confidence	222.166	225.79	1.01631
adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]	416	AP1G1	Low confidence	207.442	200.339	1.03545
	1596		High confidence	222.134	225.731	1.01619
adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	408	JPH4	Low confidence	207.558	200.363	1.03591
	1594		High confidence	222.133	225.731	1.0162
adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382]	699	AP1S1	Low confidence	205.169	199.601	1.0279
	1598		High confidence	222.134	225.731	1.01619
adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]	693	no value	Low confidence	205.207	199.613	1.02802
	1595		High confidence	222.134	225.731	1.01619
adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3]	777	AP1S3	Low confidence	204.807	199.484	1.02668
	1597		High confidence	222.134	225.731	1.01619
adapter-related protein complex 2 alpha 1 subunit (alpha-adaptin a) (adaptor protein complex ap-2 alpha-1 subunit) (clathrin assembly protein complex 2 alpha-a large chain) (100 kda coated vesicle protein a) (plasma membrane adaptor ha2/ap2 adaptin alpha a subunit). [swissprot;acc:o95782]	352	no value	Low confidence	204.762	197.135	1.03869
adapter-related protein complex 2 alpha 2 subunit (alpha-adaptin c) (clathrin assembly protein complex 2 alpha-c large chain) (100 kda coated vesicle protein c) (plasma membrane adaptor ha2/ap2 adaptin alpha c subunit) (huntingtin-interacting protein hypj). [swissprot;acc:o94973]	349	AP2A2
adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851]	437	AP2B1		207.064	200.076	1.03493
	1600		High confidence	222.103	225.675	1.01608
adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [swissprot;acc:o00203]	2044	AP3B1		199.928	198.24	1.00851
	4836		Low confidence	209.715	210.462	1.00356
adapter-related protein complex 3 beta 2 subunit (beta-adaptin 3b) (ap-3 complex beta-3b subunit) (beta-3b-adaptin) (neuron-specific vesicle coat protein beta-nap). [swissprot;acc:q13367]	2046	no value	High confidence	199.928	198.24	1.00851
	4800		Low confidence	210.222	211.108	1.00421
adapter-related protein complex 3 delta 1 subunit (delta-adaptin 3) (ap-3 complex delta subunit) (delta-adaptin). [swissprot;acc:o14617]	4897	AP3D1		205.262	204.814	1.00219
adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]	1098	AP3M1	High confidence	217.323	211.185	1.02906
	1641		Low confidence	202.78	198.661	1.02073
adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677]	1099	AP3M2	High confidence	217.315	211.183	1.02904
	1640		Low confidence	202.787	198.666	1.02074

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
- 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.