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	Value Type	description	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	Value Type	description	red	network_comparison	green
628	HTRA1	Rooted	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	59.6661	1.07882	64.3692
629	no value	Squared	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	32192.5	1.17937	37966.8
	CREG1	Measured	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	6228.39	1.126	7013.19
	GABRA3	Ranked	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	214.256	1.05994	202.14
	SYN3	Rooted	synapsin iii. [swissprot;acc:o14994]	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	Measured	disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	6228.39	1.126	7013.19
	GABRA4	Squared	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	32192.8	1.17937	37967.1
	NDUFA6	Ranked	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	214.256	1.05993	202.141
631	GABRE	Squared	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	32192.8	1.17937	37967.1
	HEY1	Rooted	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]	60.0129	1.07872	64.7371
	KNG1	Measured	kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042]	6228.39	1.126	7013.19
	PDXDC1	Ranked	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	214.256	1.05993	202.141
632	no value	Measured	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	6228.39	1.126	7013.19
	ABLIM2	Rooted	actin binding lim protein 2. [refseq;acc:nm_032432]	60.0129	1.07872	64.7371
	HOXD9	Ranked	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	214.254	1.05979	202.166
	JMJD6	Squared	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	32192.5	1.17937	37966.8
633	AARS	Ranked	alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [swissprot;acc:p49588]	234.106	1.05979	248.104
	FTL	Measured	ferritin light chain (ferritin l subunit). [swissprot;acc:p02792]	6228.39	1.126	7013.19
	GABRA1	Squared	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	32192.8	1.17937	37967.2
	HEYL	Rooted	hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]	60.0129	1.07872	64.7371
634	no value	Ranked	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	226.523	1.05958	213.786
	DLGAP4	Measured	disks large-associated protein 4 (dap-4) (sap90/psd-95-associated protein 4) (sapap4) (psd-95/sap90 binding protein 4). [swissprot;acc:q9y2h0]	6228.39	1.126	7013.19
	GABRA3	Squared	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	32192.8	1.17937	37967.1
	SYN2	Rooted	synapsin ii. [swissprot;acc:q92777]	60.0129	1.07872	64.7371
635	FTHL17	Measured	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]	6228.97	1.12595	7013.53
	HOXC9	Squared	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	32189.9	1.17936	37963.6
	MRRF	Rooted	mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]	60.0129	1.07872	64.7371
	RPL37	Ranked	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	228.639	1.05957	242.258
636	HOXB9	Squared	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	32187.7	1.17936	37961
	PEX5	Rooted	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]	60.0129	1.07872	64.7371
	PSMA5	Measured	proteasome subunit alpha type 5 (ec 3.4.25.1) (proteasome zeta chain) (macropain zeta chain) (multicatalytic endopeptidase complex zeta chain). [swissprot;acc:p28066]	5713.41	1.12593	6432.92
	SFRS1	Ranked	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	228.639	1.05957	242.258
637	HEY2	Rooted	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]	60.0129	1.07872	64.7371
	HOXA9	Squared	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	32188.2	1.17936	37961.6
	NME2P1	Measured	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	7756.51	1.12573	8731.76
	PPAT	Ranked	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	228.639	1.05957	242.258
638	HES1	Rooted	transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]	60.0129	1.07872	64.7371
	HOXA10	Squared	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	32183.5	1.17935	37955.7
	NME2	Measured	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]	7755.69	1.12572	8730.74
	SNX17	Ranked	sorting nexin 17. [swissprot;acc:q15036]	228.639	1.05957	242.258
639	no value	Measured	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]	7753.59	1.12569	8728.13
	BAG3	Squared	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]	17618.8	1.17924	20776.8
	ECH1	Rooted	delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]	60.0129	1.07872	64.7371
	HRB	Ranked	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]	217.67	1.05938	230.596
640	no value		intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]
	ABLIM1	Rooted	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]	60.0129	1.07872	64.7371
	GSTT2B	Measured	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	4811.02	1.12547	5414.64
	QPRT	Squared	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [swissprot;acc:q15274]	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.