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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	network_comparison	green

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Showing element 694 to 743 of 6456 in total

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

description	Rank	Hugo	Network Comparison Type	red	network_comparison	green
atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [swissprot;acc:p53396]	2689	ACLY	Divided	213.792	1.00081	213.619
atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	1827	CLPX	Subtracted	222.819	2.409	225.228
	1871		Divided		1.01081
atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]	2726	no value	Subtracted	221.001	0.074	220.927
	2727		Divided		1.00033
atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010]		XRCC5	Subtracted		0.074
	2728		Divided		1.00033
atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762]	1688	RECQL5	Subtracted	216.079	2.945	219.024
	1703		Divided		1.01363
atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	458	DDX18	Subtracted	251.653	16.147	235.506
	529		Divided		1.06856
atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	276	DDX24	Subtracted	258.437	23.254	235.183
	328		Divided		1.09888
atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	382	DDX54	Subtracted	253.852	19.044	234.808
	428		Divided		1.0811
atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	913	DDX52	Subtracted	243.297	7.924	235.373
	990		Divided		1.03367
atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	1290	ATPIF1	Subtracted	228.644	4.908	223.736
	1365		Divided		1.02194
atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	1089	ATP6V0D2	Subtracted	218.487	5.831	212.656
	1126		Divided		1.02742
atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	1086	ATP6V0A4	Subtracted	218.528	5.852	212.676
	1120		Divided		1.02752
atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	1332	ATN1	Subtracted	218.471	4.595	213.876
	1384		Divided		1.02148
atrophin-1 interacting protein 1; activin receptor interacting protein 1; likely ortholog of mouse activin receptor interacting protein 1; atrophin-1 interacting protein a; membrane associated guanylate kinase 2; activin receptor interacting p. [refseq;acc:nm_012301]	990	MAGI2	Subtracted	221.682	6.998	228.68
	1035		Divided		1.03157
au rna-binding protein/enoyl-coenzyme a hydratase precursor; au rna-binding protein/enoyl-coenzyme a hydratase; 3-methylglutaconyl-coa hydratase; mga type i. [refseq;acc:nm_001698]	2913	AUH		0.00001	1	0.00001
			Subtracted	0	0	0
autoantigen ngp-1. [swissprot;acc:q13823]	573	GNL2		250.302	13.485	236.817
	670		Divided		1.05694
autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]	1729	ATG12		187.582	1.01304	190.028
	1816		Subtracted		2.446
autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	1454	ATG5		240.077	4.062	236.015
	1540		Divided		1.01721
axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645]	2002	DNALI1	Subtracted	208.315	1.905	206.41
	2003		Divided		1.00923
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	1559	BCL6B		196.191	1.01655	192.996
	1632		Subtracted		3.195
b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749]	2655	BCL3	Divided	201.445	1.0011	201.667
	2661		Subtracted		0.222
b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	1556	BCL6	Divided	196.192	1.01656	192.996
	1630		Subtracted		3.196
b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	980	BRAF	Divided	130.289	1.03396	134.713
	1393		Subtracted		4.424
b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	114	B9D1		229.818	37.447	267.265
	181		Divided		1.16294
ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	188	GSTO2	Subtracted	227.357	26.793	254.15
	244		Divided		1.11785
ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6]	457	FNBP1	Subtracted	210.578	16.186	226.764

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.