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 1308 to 1357 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
654	ZEB2	zinc finger homeobox protein 1b (smad interacting protein 1) (smadip1) (hrihfb2411). [swissprot;acc:o60315]	Low confidence	205.995	200.27	1.02859
655	DOK1	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	High confidence	216.504	204.622	1.05807
	ZEB1	transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275]	Low confidence	205.995	200.27	1.02859
656	FRK	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	High confidence	216.504	204.622	1.05807
	ITGB2	integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [swissprot;acc:p05107]	Low confidence	206.339	200.608	1.02857
657	ITGB7	integrin beta-7 precursor. [swissprot;acc:p26010]		206.341	200.609
	SYN3	synapsin iii. [swissprot;acc:o14994]	High confidence	229.072	216.576	1.0577
658	no value	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
	ITGB3	integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106]	Low confidence	206.342	200.61	1.02857
659	HEY1	hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]	High confidence	229.072	216.576	1.0577
	TP53I3	tumor protein p53 inducible protein 3; quinone oxidoreductase homolog; p53-induced gene 3 protein. [refseq;acc:nm_004881]	Low confidence	175.504	170.633	1.02855
660	ABLIM2	actin binding lim protein 2. [refseq;acc:nm_032432]	High confidence	229.072	216.576	1.0577
	ITGA7	integrin alpha-7 precursor. [swissprot;acc:q13683]	Low confidence	206.32	200.601	1.02851
661	HEYL	hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]	High confidence	229.072	216.576	1.0577
	SOS1	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	Low confidence	200.62	195.059	1.02851
662	ITGA6	integrin alpha-6 precursor (vla-6) (cd49f). [swissprot;acc:p23229]		206.321	200.601
	SYN2	synapsin ii. [swissprot;acc:q92777]	High confidence	229.072	216.576	1.0577
663	ITGA3	integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [swissprot;acc:p26006]	Low confidence	206.32	200.601	1.02851
	MRRF	mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]	High confidence	229.072	216.576	1.0577
664	PEX5	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]
	PRPF31	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	Low confidence	201.821	196.233	1.02848
665	HEY2	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]	High confidence	229.072	216.576	1.0577
	SKP1A	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	Low confidence	204.882	199.214	1.02845
666	HES1	transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]	High confidence	229.072	216.576	1.0577
	SOS2	son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890]	Low confidence	200.639	195.092	1.02843
667	ECH1	delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]	High confidence	229.072	216.576	1.0577
	RNF144B	ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	Low confidence	208.62	202.855	1.02842
668	ABLIM1	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]	High confidence	229.072	216.576	1.0577
	MIOX	inositol oxygenase (ec 1.13.99.1) (myo-inositol oxygenase) (aldehyde reductase-like 6) (renal-specific oxidoreductase) (kidney-specific protein 32). [swissprot;acc:q9ugb7]	Low confidence	212.062	206.202	1.02842
669	CYP3A43	cytochrome p450 3a43 (ec 1.14.14.1). [swissprot;acc:q9hb55]		203.712	198.082
	SYN1	synapsin i (brain protein 4.1). [swissprot;acc:p17600]	High confidence	229.072	216.576	1.0577
670	no value	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]	Low confidence	204.551	198.901	1.02841
	GNL2	autoantigen ngp-1. [swissprot;acc:q13823]	High confidence	250.302	236.817	1.05694
671	ITGB1	integrin beta-1 precursor (fibronectin receptor beta subunit) (cd29 antigen) (integrin vla-4 beta subunit). [swissprot;acc:p05556]	Low confidence	206.277	200.582	1.02839
	NUBP1	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	High confidence	210.739	199.398	1.05688
672	CYP3A7	cytochrome p450 3a7 (ec 1.14.14.1) (cypiiia7) (p450-hfla). [swissprot;acc:p24462]	Low confidence	203.727	198.116	1.02832
	NUBP2	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	High confidence	210.739	199.398	1.05688
673	CASK	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]		226.497	214.355	1.05664
	DDX31	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779]	Low confidence	203.604	197.996	1.02832
674	HIF3A	hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]	High confidence	226.497	214.355	1.05664
	PRSS7	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073]	Low confidence	204.81	199.174	1.0283
675	CYP3A5	cytochrome p450 3a5 (ec 1.14.14.1) (cypiiia5) (p450-pcn3). [swissprot;acc:p20815]		203.702	198.095
	SIM1	single-minded homolog 1. [swissprot;acc:p81133]	High confidence	226.497	214.355	1.05664
676	DUT	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	Low confidence	202.698	197.124	1.02828
	POLR2G	dna-directed rna polymerase ii 19 kda polypeptide (ec 2.7.7.6) (rpb7). [swissprot;acc:p52433]	High confidence	232.469	245.613	1.05654
677	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Low confidence	207.03	201.339	1.02827
	LSM4	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	High confidence	228.944	216.745	1.05628
678	CYP3A4	cytochrome p450 3a4 (ec 1.14.13.67) (quinine 3-monooxygenase) (cypiiia4) (nifedipine oxidase) (nf-25) (p450-pcn1). [swissprot;acc:p08684]	Low confidence	203.747	198.152	1.02824
	SNX5	sorting nexin 5. [swissprot;acc:q9y5x3]	High confidence	208.482	220.175	1.05609
679	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		132.413	125.389	1.05602

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.