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

Results: HTML CSV LaTeX

Showing element 723 to 772 of 1345 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 0

Rank	Hugo	description	Interaction Map	red	green	network_comparison
362	no value	thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445]	Low confidence	12808.6	11717.8	1.09309
	MAGEA10	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	High confidence	16321	15577	1.04776
363	CYP4F8	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]	Low confidence	14662.2	13417.3	1.09278
	MAGEB4	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	High confidence	16321	15577	1.04776
364	BMP8A	bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [swissprot;acc:p34820]	Low confidence	14243.4	13038.7	1.09239
	MAGED2	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	High confidence	16321	15577	1.04776
365	no value	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Low confidence	11749.1	10764.4	1.09148
	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	High confidence	7769.96	8139.71	1.04759
366	no value	glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [swissprot;acc:p23378]		8614.89	9017.27	1.04671
		sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Low confidence	11514.3	12566.8	1.09141
367		60s ribosomal protein l23a. [swissprot;acc:p29316]		11745.8	10763.7	1.09124
		f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]	High confidence	13801.7	13185.9	1.0467
368		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]		16679.2	15940.6	1.04633
		ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	Low confidence	10989.6	11992.2	1.09123
369		4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]	High confidence	18849.7	19704.7	1.04536
		small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	Low confidence	10652.2	11623.2	1.09115
370		williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]		13558.4	14792.7	1.09104
	PDHA2	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	High confidence	13652.7	13061	1.0453
371	NSUN5B	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]	Low confidence	13555.3	14788.5	1.09098
	SMARCC2	swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075]	High confidence	13247.9	12674.2	1.04527
372	no value	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]		11869.9	12402.7	1.04489
	NSUN5	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044]	Low confidence	13548.5	14779.4	1.09085
373	no value	mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [swissprot;acc:q99683]	High confidence	10598.2	11061.5	1.04371
		potential phospholipid-transporting atpase vc (ec 3.6.3.1) (atpvc) (aminophospholipid translocase vc). [swissprot;acc:o60312]	Low confidence	12819.4	11757.1	1.09035
374		protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981]		10022.7	9192.47	1.09032
	CAPS	calcyphosine. [swissprot;acc:q13938]	High confidence	9874.54	9478.1	1.04183
375	HGD	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	Low confidence	19314	21041	1.08942
	TAF9B	tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975]	High confidence	14247.6	13686.9	1.04097
376	TAF4	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	Low confidence	8054.34	8772.02	1.0891
	UQCRC1	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930]	High confidence	10284.9	10695.6	1.03993
377	HS6ST2	heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	Low confidence	9011.64	9800.48	1.08754
	ITGB3	integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106]	High confidence	14512.3	13958.2	1.0397
378	no value	rho guanine nucleotide exchange factor (gef) 12; leukemia-associated rho guanine nucleotide exchange factor. [refseq;acc:nm_015313]	Low confidence	8932.26	8216.2	1.08715
	DCHS1	protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]	High confidence	19713.5	18962.5	1.0396
379	PSMD10	26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]		11228.4	10806	1.03909
	TUB	tubby protein homolog. [swissprot;acc:p50607]	Low confidence	11049.6	10165.2	1.087
380	no value	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	High confidence	9566.15	9936.37	1.0387
		tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	Low confidence	13627.5	12538.5	1.08685
381	NCBP2L	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]		10750	11678.8	1.0864
	RPS27L	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	High confidence	9565.54	9935.19	1.03864
382	ACTG1	actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571]		10449	10061.8	1.03848
	FUBP1	far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902]	Low confidence	10911.1	11853.8	1.0864
383	CDYL2	chromodomain y-like protein 2. [refseq;acc:nm_152342]	High confidence	10273.1	10665.1	1.03816
	CNN2	calponin h2, smooth muscle (neutral calponin). [swissprot;acc:q99439]	Low confidence	15846.9	14590.6	1.0861
384	BYSL	bystin. [swissprot;acc:q13895]	High confidence	10833.3	11244.5	1.03796
	CYP27B1	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	Low confidence	13533.1	14695.2	1.08587
385	no value	ischemia/reperfusion inducible protein. [refseq;acc:nm_024640]		12463.5	11482.6	1.08542
	CDY2B	testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]	High confidence	10302.7	10686.7	1.03727
386	AGXT2L1	alanine-glyoxylate aminotransferase 2-like 1. [refseq;acc:nm_031279]	Low confidence	12706.6	13789.7	1.08524
	CDY1B	testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]	High confidence	10303.7	10687.4	1.03724

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.