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	red	Interaction Map	Filtered	network_comparison	green

Results: HTML CSV LaTeX

Showing element 2512 to 2561 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	red	network_comparison	green
628	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Rooted	59.6661	1.07882	64.3692
629	no value	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	Squared	32192.5	1.17937	37966.8
	CREG1	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	Measured	6228.39	1.126	7013.19
	GABRA3	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	Ranked	214.256	1.05994	202.14
	SYN3	synapsin iii. [swissprot;acc:o14994]	Rooted	60.0129	1.07872	64.7371
630	no value	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
	DLGAP3	disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	Measured	6228.39	1.126	7013.19
	GABRA4	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	Squared	32192.8	1.17937	37967.1
	NDUFA6	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	Ranked	214.256	1.05993	202.141
631	GABRE	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	Squared	32192.8	1.17937	37967.1
	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]	Rooted	60.0129	1.07872	64.7371
	KNG1	kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042]	Measured	6228.39	1.126	7013.19
	PDXDC1	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	Ranked	214.256	1.05993	202.141
632	no value	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	Measured	6228.39	1.126	7013.19
	ABLIM2	actin binding lim protein 2. [refseq;acc:nm_032432]	Rooted	60.0129	1.07872	64.7371
	HOXD9	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	Ranked	214.254	1.05979	202.166
	JMJD6	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	Squared	32192.5	1.17937	37966.8
633	AARS	alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]	Ranked	234.106	1.05979	248.104
	FTL	ferritin light chain (ferritin l subunit). [swissprot;acc:p02792]	Measured	6228.39	1.126	7013.19
	GABRA1	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	Squared	32192.8	1.17937	37967.2
	HEYL	hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]	Rooted	60.0129	1.07872	64.7371
634	no value	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	Ranked	226.523	1.05958	213.786
	DLGAP4	disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	Measured	6228.39	1.126	7013.19
	GABRA3	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	Squared	32192.8	1.17937	37967.1
	SYN2	synapsin ii. [swissprot;acc:q92777]	Rooted	60.0129	1.07872	64.7371
635	FTHL17	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]	Measured	6228.97	1.12595	7013.53
	HOXC9	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Squared	32189.9	1.17936	37963.6
	MRRF	mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]	Rooted	60.0129	1.07872	64.7371
	RPL37	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	Ranked	228.639	1.05957	242.258
636	HOXB9	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Squared	32187.7	1.17936	37961
	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]	Rooted	60.0129	1.07872	64.7371
	PSMA5	proteasome subunit alpha type 5 (ec 3.4.25.1) (proteasome zeta chain) (macropain zeta chain) (multicatalytic endopeptidase complex zeta chain). [swissprot;acc:p28066]	Measured	5713.41	1.12593	6432.92
	SFRS1	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	Ranked	228.639	1.05957	242.258
637	HEY2	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]	Rooted	60.0129	1.07872	64.7371
	HOXA9	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Squared	32188.2	1.17936	37961.6
	NME2P1	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Measured	7756.51	1.12573	8731.76
	PPAT	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	Ranked	228.639	1.05957	242.258
638	HES1	transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]	Rooted	60.0129	1.07872	64.7371
	HOXA10	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Squared	32183.5	1.17935	37955.7
	NME2	nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531]	Measured	7755.69	1.12572	8730.74
	SNX17	sorting nexin 17. [swissprot;acc:q15036]	Ranked	228.639	1.05957	242.258
639	no value	nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [swissprot;acc:p22392]	Measured	7753.59	1.12569	8728.13
	BAG3	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817]	Squared	17618.8	1.17924	20776.8
	ECH1	delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]	Rooted	60.0129	1.07872	64.7371
	HRB	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]	Ranked	217.67	1.05938	230.596
640	no value	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]
	ABLIM1	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]	Rooted	60.0129	1.07872	64.7371
	GSTT2B	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	Measured	4811.02	1.12547	5414.64
	QPRT	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [swissprot;acc:q15274]	Squared	22848.5	1.17914	26941.5
641	no value	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]		18364.9	1.17909	21653.8

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.