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

Results: HTML CSV LaTeX

Showing element 2758 to 2807 of 12912 in total

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

Rank	Value Type	description	Hugo	red	network_comparison	green
690	Ranked	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	SNW1	220.593	1.05553	208.987
	Squared	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	CPXM2	33104	1.17262	38818.5
	Rooted	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	CLEC3B	86.1101	1.07399	92.4812
691	Measured	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	PRKAB1	6920.69	1.11949	7747.63
	Ranked	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	BCAS2	217.602	1.05532	206.195
	Squared	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	33104	1.17262	38818.5
	Rooted	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	KCNA2	63.1365	1.07395	67.8053
692	Measured	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]	PRKAG2	6920.69	1.11949	7747.63
	Ranked	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	217.602	1.05532	206.195
	Squared	cpz gene product. [refseq;acc:nm_003652]	CPZ	33104	1.17262	38818.5
	Rooted	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	EIF3G	51.3598	1.07381	55.1508
693	Measured	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	RBPJ	7725.1	1.11943	8647.74
	Ranked	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	222.554	1.05524	234.847
	Squared	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	CPE	33104	1.17262	38818.5
	Rooted	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	EIF3A	51.3598	1.07381	55.1508
694	Measured	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]	HIVEP3	7725.1	1.11943	8647.74
	Ranked	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE	241.907	1.05475	229.35
	Squared	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	CPXM1	33104	1.17262	38818.5
	Rooted	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	PYCR2	68.4526	1.07352	73.4852
695	Measured	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	7725.1	1.11943	8647.74
	Ranked	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	226.135	1.05471	214.405
	Squared	sphingosine-1-phosphate lyase 1; sphingosine-1-phosphate lyase. [refseq;acc:nm_003901]	SGPL1	22778.5	1.17186	26693.1
	Rooted	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	KCNA1	63.17	1.07348	67.8116
696	Measured	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]	HIVEP2	7725.1	1.11943	8647.74
	Ranked	sr rich protein. [refseq;acc:nm_032870]	SFRS18	225.293	1.05455	213.64
	Squared	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	22778.5	1.17186	26693.1
	Rooted	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	PYCR1	68.433	1.07332	73.4502
697	Measured	sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	SH3GL2	7105.27	1.11941	7953.71
	Ranked	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	FTH1	220.444	1.05419	209.113
	Squared	ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181]	OAT	22778.5	1.17186	26693.1
	Rooted	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	KCNA4	63.1944	1.07314	67.8162
698	Measured	armet protein precursor (arginine-rich protein). [swissprot;acc:p55145]	ARMET	7101.95	1.11939	7949.85
	Ranked	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	FTMT	220.437	1.05413	209.118
	Squared	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	17850.2	1.17163	20913.9
	Rooted	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	CSTF3	128.909	1.0727	120.173
699	Measured	histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113]	HDC	7101.94	1.11939	7949.84
	Ranked	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2	220.438	1.05413	209.118
	Squared	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	18148.6	1.17106	21253.1
	Rooted	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]	ATXN2L	57.0263	1.0724	61.1552
700	Measured	40s ribosomal protein s28. [swissprot;acc:p25112]	no value	7161.14	1.11936	8015.92
	Ranked	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]		220.438	1.05413	209.118
	Squared	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	LSM1	19072.5	1.17066	22327.5
	Rooted	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	no value	57.0263	1.0724	61.1552
701	Measured	importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060]	CSE1L	7802.31	1.11913	8731.82
	Ranked	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	220.438	1.05413	209.118
	Squared	atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565]	ATP6V0D2	25852.2	1.17045	30258.6
	Rooted	ras-related protein rab-37. [swissprot;acc:q96ax2]	RAB37	51.4945	1.07238	48.0189
702	Measured	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	SH3GL3	7067.46	1.11911	7909.27
	Ranked	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	AHCYL1	220.438	1.05413	209.118
	Squared	vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449]	ATP6V0C	25114	1.1701	29386

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.