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	Network Comparison Type	Value Type	Hugo	Interaction Map	Filtered	red	network_comparison	green

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Showing element 358 to 407 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

description	Rank	Network Comparison Type	Hugo	red	network_comparison	green
activated p21cdc42hs kinase. [refseq;acc:nm_005781]	2341	Divided	TNK2	229.258	1.00452	230.294
activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375]	1137	Subtracted	ABT1	219.399	5.615	213.784
	1169	Divided			1.02626
activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482]	1044	Subtracted	FHL5	269.157	6.374	275.531
	1303	Divided			1.02368
activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259]	1288	Subtracted	ACVR1C	223.884	4.911	228.795
	1366	Divided			1.02194
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	0.00001	1	0.00001
		Subtracted		0	0	0
acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]	2498	Divided	NDUFAB1	194.527	1.00284	195.08
	2509	Subtracted			0.553
acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310]	1412		ACADM	206.102	4.318	210.42
	1413	Divided			1.02095
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]	1999	Subtracted	no value	215.799	1.934	213.865
	2019	Divided			1.00904
acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	733		ACADVL	164	1.05154	155.961
	895	Subtracted			8.039
acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [swissprot;acc:q15067]	2643	Divided	ACOX1	194.097	1.00119	194.328
	2653	Subtracted			0.231
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	Divided	ACOX2	193.389	1.0037	194.105
	2437	Subtracted			0.716
ad24 protein. [refseq;acc:nm_022451]	434		NOC3L	251.334	16.662	234.672
	505	Divided			1.071
adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [swissprot;acc:q9p2n4]	2513	Subtracted	ADAMTS9	215.835	0.506	216.341
	2516	Divided			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]	1557	Subtracted	AP1B1	222.166	3.624	225.79
	1586	Divided			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]	1566	Subtracted	AP1G1	222.134	3.597	225.731
	1596	Divided			1.01619
adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]	1564	Subtracted	JPH4	222.133	3.598
	1594	Divided			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]	1568	Subtracted	AP1S1	222.134	3.597
	1598	Divided			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]	1565	Subtracted	no value		3.597
	1595	Divided			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]	1567	Subtracted	AP1S3		3.597
	1597	Divided			1.01619
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]	1575	Subtracted	AP2B1	222.103	3.572	225.675
	1600	Divided			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	1.00851	198.24
	2071	Subtracted			1.688
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	Divided	no value		1.00851
	2073	Subtracted			1.688
adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]	1061		AP3M1	217.323	6.138	211.185
	1098	Divided			1.02906
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]	1064	Subtracted	AP3M2	217.315	6.132	211.183
	1099	Divided			1.02904
adaptor protein with pleckstrin homology and src homology 2 domains. [refseq;acc:nm_020979]	2870		SH2B2	0.00001	1	0.00001
		Subtracted		0	0	0
adaptor-associated kinase 1. [refseq;acc:nm_014911]	1346		AAK1	218.47	4.594	213.876

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.