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	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 5858 to 5907 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
733	FZR1	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	Measured	Divided	13241.4	11864	1.1161
	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Squared	Subtracted	16442.8	20662.7	4219.9
	MRPL36	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	Rooted		50.2954	45.9216	4.3738
	NOL6	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]		Divided	52.0099	55.5904	1.06884
	TCIRG1	vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488]	Measured	Subtracted	5890.41	6547.81	657.4
			Squared	Divided	26029.1	30413.6	1.16845
	TSNAX	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]	Ranked	Subtracted	224.385	235.131	10.746
734	no value	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]		Divided	232.601	244.534	1.0513
		ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	Squared	Subtracted	23947.4	28163.7	4216.3
	ATP6V0A1	vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050]		Divided	26032.5	30417.7	1.16845
	ATP6V0A4	atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	Measured	Subtracted	5890.59	6547.99	657.4
	EXOC6B	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	Rooted		62.5729	66.9286	4.3557
	LOH12CR1	loh1cr12. [refseq;acc:nm_058169]		Divided	57.805	61.7803	1.06877
	PCSK5	proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824]	Measured		13241.4	11864	1.1161
	PQBP1	polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710]	Ranked	Subtracted	224.385	235.131	10.746
735	ACRC	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	Squared		23947.7	28163.9	4216.2
	ATP6V0A1	vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050]	Measured		5890.88	6548.28	657.4
	ATP6V0A4	atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	Squared	Divided	26030.5	30415.2	1.16844
	ATP6V0C	vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449]	Measured		5768.32	6434.78	1.11554
	CSDE1	unr protein. [swissprot;acc:o75534]	Rooted		57.805	61.7803	1.06877
	HEMK1	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]	Ranked	Subtracted	229.045	218.343	10.702
	RANP1	gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]		Divided	232.601	244.534	1.0513
	RPS5	40s ribosomal protein s5. [swissprot;acc:p46782]	Rooted	Subtracted	50.4649	46.1093	4.3556
736	no value	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]	Ranked	Divided	232.601	244.534	1.0513
	EIF5B	translation initiation factor if-2. [swissprot;acc:o60841]	Measured	Subtracted	5811.51	6467.62	656.11
	EXOC6	exocyst complex component sec15a. [swissprot;acc:q8tag9]	Rooted		62.5069	66.8603	4.3534
	N6AMT1	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	Ranked		228.78	218.091	10.689
	OSGEPL1	putative sialoglycoprotease type 2. [refseq;acc:nm_022353]	Squared	Divided	22017.1	25721.9	1.16827
	SGCZ	sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167]	Measured		5768.32	6434.78	1.11554
	SUMO3	ubiquitin-like protein smt3a. [swissprot;acc:p55854]	Squared	Subtracted	23948	28164.1	4216.1
	WDR3	wd-repeat protein 3. [swissprot;acc:q9unx4]	Rooted	Divided	51.5438	55.0853	1.06871
737	no value	isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252]	Squared	Subtracted	23969.3	28175.3	4206
		pnas-18. [sptrembl;acc:q9bzu3]	Rooted	Divided	97.8205	91.5467	1.06853
	ACBD3	golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735]	Measured		5768.32	6434.78	1.11554
	ATP5D	atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p30049]		Subtracted	6000.07	6655.11	655.04
	EXOC6B	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	Ranked		221.968	211.326	10.642
	NOL5A	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]	Rooted		50.3239	54.6658	4.3419
	SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	Ranked	Divided	125.526	119.402	1.05129
	TLE2	transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725]	Squared		31479.4	36770.8	1.16809
738	no value	transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724]			31467.1	36752.2	1.16796
	CCDC22	jm1 protein. [refseq;acc:nm_014008]	Rooted	Subtracted	61.5849	65.9155	4.3306
	EXOC6	exocyst complex component sec15a. [swissprot;acc:q8tag9]	Ranked		222.138	211.503	10.635
	SF3A3	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	Measured		5248.07	5901.72	653.65
	SGCD	delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629]		Divided	5768.32	6434.78	1.11554
	STX7	syntaxin 7. [swissprot;acc:o15400]	Rooted		61.5022	65.7076	1.06838
	TSC22D4	tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8]	Squared	Subtracted	26312	30514.1	4202.1
	XAB2	xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7]	Ranked	Divided	222.825	211.966	1.05123
739	DEGS1	sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [refseq;acc:nm_003676]	Squared	Subtracted	26312	30514.1	4202.1
	EXOC5	exocyst complex component sec10 (hsec10). [swissprot;acc:o00471]	Rooted	Divided	65.3677	69.828	1.06823
	MARCH8	cellular modulator of immune recognition. [refseq;acc:nm_145021]	Measured		5768.32	6434.78	1.11554

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.