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

Results: HTML CSV LaTeX

Showing element 62124 to 62173 of 66312 in total

Interaction Map  : Low confidence
Filtered  : 1

Rank	Value Type	Hugo	Network Comparison Type	description	network_comparison	red	green
4538	Ranked	TMEM91	Subtracted	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	1.622	202.824	201.202
	Squared	EPB41L3	Divided	band 4.1-like protein 3 (4.1b) (differentially expressed in adenocarcinoma of the lung protein 1) (dal-1). [swissprot;acc:q9y2j2]	1.01994	44595	43723.2
		PSMA3	Subtracted	proteasome subunit alpha type 3 (ec 3.4.25.1) (proteasome component c8) (macropain subunit c8) (multicatalytic endopeptidase complex subunit c8). [swissprot;acc:p25788]	865.8	45503.7	44637.9
	Rooted	CTBP2		c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	1.5955	79.0599	80.6554
		ZRANB1	Divided	trabid protein. [swissprot;acc:q9ugi0]	1.02201	70.1238	71.667
4539	Measured	NOTCH1	Subtracted	neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]	142.13	8074.17	8216.3
		SSTR3	Divided	somatostatin receptor type 3 (ss3r) (ssr-28). [swissprot;acc:p32745]	1.01782	7910.71	8051.71
	Ranked	RTN4IP1	Subtracted	reticulon 4 interacting protein 1; nogo-interacting mitochondrial protein. [refseq;acc:nm_032730]	1.616	195.465	193.849
		SMAD2	Divided	mothers against decapentaplegic homolog 2 (smad 2) (mothers against dpp homolog 2) (mad-related protein 2) (hmad-2) (jv18-1) (hsmad2). [swissprot;acc:q15796]	1.00812	201.535	199.911
	Squared	SHROOM2	Subtracted	apical-like protein (apxl protein). [swissprot;acc:q13796]	862.9	45893.9	45031
		UBE1C	Divided	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]	1.01991	39452.8	40238.2
	Rooted	BCL6B	Subtracted	b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	1.5935	79.1004	80.6939
		PAPOLA	Divided	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	1.02195	74.7749	76.4164
4540	Measured	NOTCH2	Subtracted	neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]	142.13	8074.17	8216.3
		RPL26	Divided	60s ribosomal protein l26. [swissprot;acc:q02877]	1.01782	7479.72	7613.03
	Ranked	CHST6	Subtracted	carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615]	1.609	202.436	200.827
		TPP2	Divided	tripeptidyl-peptidase ii (ec 3.4.14.10) (tpp-ii) (tripeptidyl aminopeptidase). [swissprot;acc:p29144]	1.00812	198.539	196.94
	Squared	DYNC1LI1		dynein light chain-a. [refseq;acc:nm_016141]	1.0199	46141.9	45241.6
		FOSL1	Subtracted	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	861.6	32529	33390.6
	Rooted	BCL6		b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	1.5935	79.1011	80.6946
		CHRNA6	Divided	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]	1.02194	71.5214	73.0909
4541	Measured	IFT88	Subtracted	recessive polycystic kidney disease protein tg737 homolog. [swissprot;acc:q13099]	141.91	8138.55	8280.46
		SSTR1	Divided	somatostatin receptor type 1 (ss1r) (srif-2). [swissprot;acc:p30872]	1.01782	7910.61	8051.57
	Ranked	CHST1	Subtracted	carbohydrate (keratan sulfate gal-6) sulfotransferase 1; carbohydrate (chondroitin 6/keratan) sulfotransferase 1. [refseq;acc:nm_003654]	1.609	202.436	200.827
		TMEM91	Divided	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	1.00806	202.824	201.202
	Squared	CRKL	Subtracted	crk-like protein. [swissprot;acc:p46109]	855.5	45806.2	44950.7
		DYNC1LI2	Divided	dynein light intermediate chain 2, cytosolic (lic53/55) (lic-2). [swissprot;acc:o43237]	1.0199	46141.9	45241.6
	Rooted	CHRNA3		neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]	1.02194	71.5207	73.0901
		MRPS2	Subtracted	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399]	1.5924	70.9402	72.5326
4542	Measured	FEM1A		fem-1 homolog a (c.elegans). [refseq;acc:nm_018708]	141.75	7912.43	8054.18
		SSTR4	Divided	somatostatin receptor type 4 (ss4r). [swissprot;acc:p31391]	1.0178	7910.34	8051.17
	Ranked	CCT7		t-complex protein 1, eta subunit (tcp-1-eta) (cct-eta) (hiv-1 nef interacting protein). [swissprot;acc:q99832]	1.00804	199.613	198.021
		CHST2	Subtracted	carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267]	1.609	202.436	200.827
	Squared	RPUSD2		c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	854.7	45355.4	44500.7
		TMBIM1	Divided	pp1201 protein. [refseq;acc:nm_022152]	1.01989	43157.1	42315.5
	Rooted	ARHGEF5		rho guanine nucleotide exchange factor 5 (guanine nucleotide regulatory protein tim) (oncogene tim) (p60 tim) (transforming immortalized mammary oncogene). [swissprot;acc:q12774]	1.02194	75.487	77.1435
		CTBP1	Subtracted	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]	1.5912	79.1478	80.739
4543	Measured	FEM1C		feminization 1 homolog a. [refseq;acc:nm_020177]	141.7	7912.31	8054.01
		RPS23	Divided	40s ribosomal protein s23. [swissprot;acc:p39028]	1.01778	7352.63	7483.39
	Ranked	GMFG		glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]	1.00803	210.648	208.971
		REPS2	Subtracted	ralbp1 associated eps domain containing 2; partner of ral-binding protein 1. [refseq;acc:nm_004726]	1.609	202.436	200.827
	Squared	RAB18	Divided	ras-related protein rab-18. [swissprot;acc:q9np72]	1.01987	45956	45060.6
		TMBIM4	Subtracted	z-protein (protein cgi-119) (s1r protein). [swissprot;acc:q9hc24]	854.7	45355.4	44500.7
	Rooted	CHRNA2	Divided	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822]	1.02193	71.5166	73.0853
		STXBP3	Subtracted	syntaxin binding protein 3 (unc-18 homolog 3) (unc-18c) (unc-18-3). [swissprot;acc:o00186]	1.588	68.7707	70.3587
4544	Measured	OSGIN2	Divided	protein c8orf1 (ht41). [swissprot;acc:q9y236]	1.01778	7506.11	7639.55
		PICK1	Subtracted	prkca-binding protein (protein kinase c-alpha binding protein) (protein interacting with c kinase 1). [swissprot;acc:q9nrd5]	141.54	7989.31	8130.85
	Ranked	NRG2		pro-neuregulin-2 precursor (pro-nrg2) [contains: neuregulin-2 (nrg-2) (neural-and thymus-derived activator for erbb kinases) (ntak) (divergent of neuregulin 1) (don-1)]. [swissprot;acc:o14511]	1.609	202.436	200.827
		PSMA1	Divided	proteasome subunit alpha type 1 (ec 3.4.25.1) (proteasome component c2) (macropain subunit c2) (multicatalytic endopeptidase complex subunit c2) (proteasome nu chain) (30 kda prosomal protein) (pros-30). [swissprot;acc:p25786]	1.00802	199.723	198.134
	Squared	no value		sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	1.01984	43307.9	42465.4

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.