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

Results: HTML CSV LaTeX

Showing element 2758 to 2807 of 12912 in total

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

Rank	description	Hugo	Value Type	red	green	network_comparison
690	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	SNW1	Ranked	220.593	208.987	1.05553
	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	CPXM2	Squared	33104	38818.5	1.17262
	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	CLEC3B	Rooted	86.1101	92.4812	1.07399
691	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	PRKAB1	Measured	6920.69	7747.63	1.11949
	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	BCAS2	Ranked	217.602	206.195	1.05532
	carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]	CPN1	Squared	33104	38818.5	1.17262
	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	KCNA2	Rooted	63.1365	67.8053	1.07395
692	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]	PRKAG2	Measured	6920.69	7747.63	1.11949
	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	CDC5L	Ranked	217.602	206.195	1.05532
	cpz gene product. [refseq;acc:nm_003652]	CPZ	Squared	33104	38818.5	1.17262
	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	EIF3G	Rooted	51.3598	55.1508	1.07381
693	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	CPE	Squared	33104	38818.5	1.17262
	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	EIF3A	Rooted	51.3598	55.1508	1.07381
	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	RBPJ	Measured	7725.1	8647.74	1.11943
	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	NOVA1	Ranked	222.554	234.847	1.05524
694	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE		241.907	229.35	1.05475
	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]	HIVEP3	Measured	7725.1	8647.74	1.11943
	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	CPXM1	Squared	33104	38818.5	1.17262
	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	PYCR2	Rooted	68.4526	73.4852	1.07352
695	peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126]	PPIL4	Ranked	226.135	214.405	1.05471
	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	KCNA1	Rooted	63.17	67.8116	1.07348
	sphingosine-1-phosphate lyase 1; sphingosine-1-phosphate lyase. [refseq;acc:nm_003901]	SGPL1	Squared	22778.5	26693.1	1.17186
	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]	HIVEP1	Measured	7725.1	8647.74	1.11943
696	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]	no value	Squared	22778.5	26693.1	1.17186
	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]	HIVEP2	Measured	7725.1	8647.74	1.11943
	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	PYCR1	Rooted	68.433	73.4502	1.07332
	sr rich protein. [refseq;acc:nm_032870]	SFRS18	Ranked	225.293	213.64	1.05455
697	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	FTH1		220.444	209.113	1.05419
	ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181]	OAT	Squared	22778.5	26693.1	1.17186
	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	KCNA4	Rooted	63.1944	67.8162	1.07314
	sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	SH3GL2	Measured	7105.27	7953.71	1.11941
698	armet protein precursor (arginine-rich protein). [swissprot;acc:p55145]	ARMET		7101.95	7949.85	1.11939
	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	CSTF3	Rooted	128.909	120.173	1.0727
	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	FTMT	Ranked	220.437	209.118	1.05413
	red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [swissprot;acc:p24666]	ACP1	Squared	17850.2	20913.9	1.17163
699	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]	ATXN2L	Rooted	57.0263	61.1552	1.0724
	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2	Ranked	220.438	209.118	1.05413
	histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113]	HDC	Measured	7101.94	7949.84	1.11939
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	Squared	18148.6	21253.1	1.17106
700	40s ribosomal protein s28. [swissprot;acc:p25112]	no value	Measured	7161.14	8015.92	1.11936
	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]		Rooted	57.0263	61.1552	1.0724
	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]		Ranked	220.438	209.118	1.05413
	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	LSM1	Squared	19072.5	22327.5	1.17066
701	atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	ATP6V0D2		25852.2	30258.6	1.17045
	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1	Ranked	220.438	209.118	1.05413
	importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060]	CSE1L	Measured	7802.31	8731.82	1.11913
	ras-related protein rab-37. [swissprot;acc:q96ax2]	RAB37	Rooted	51.4945	48.0189	1.07238
702	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	AHCYL1	Ranked	220.438	209.118	1.05413
	ras-related protein rab-26. [swissprot;acc:q9ulw5]	RAB26	Rooted	51.4945	48.0189	1.07238
	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	SH3GL3	Measured	7067.46	7909.27	1.11911

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.