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 3051 to 3100 of 12912 in total

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

Rank	Hugo	description	Value Type	red	green	network_comparison
763	N6AMT1	putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5]	Ranked	228.78	218.091	1.04901
	PFKM	6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	Measured	4250.54	4729.67	1.11272
764	no value	sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772]	Squared	21186.4	24698.3	1.16576
	CBS	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	Rooted	63.5181	67.7402	1.06647
	PFKL	6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]	Measured	4250.18	4729.12	1.11269
	PRPF3	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]	Ranked	222.082	211.707	1.04901
765	HEMK1	hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4]		229.045	218.343
	POLS	polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999]	Measured	4726.38	5258.95	1.11268
	RHOC	transforming protein rhoc (h9). [swissprot;acc:p08134]	Rooted	63.5181	67.7402	1.06647
	SREBF1	sterol regulatory element binding protein-1 (srebp-1) (sterol regulatory element-binding transcription factor 1). [swissprot;acc:p36956]	Squared	21186.4	24698.3	1.16576
766	ATP5C1	atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542]		24509.4	28571.6	1.16574
	TMEM189	ubiquitin-conjugating enzyme e2 variant 1 isoform b; dna-binding protein. [refseq;acc:nm_003349]	Measured	6691.93	7445.09	1.11255
	TRIOBP	protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6]	Ranked	213.804	224.226	1.04875
	TST	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	Rooted	63.5181	67.7402	1.06647
767	no value	rho interacting protein 3. [refseq;acc:nm_015134]	Ranked	213.803	224.224	1.04874
	ATP5O	atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047]	Squared	24509.4	28571.6	1.16574
	MPST	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	Rooted	63.5181	67.7402	1.06647
	UGP2	utp--glucose-1-phosphate uridylyltransferase 2 (ec 2.7.7.9) (udp- glucose pyrophosphorylase 2) (udpgp 2) (ugpase 2). [swissprot;acc:q16851]	Measured	6691.21	7444.22	1.11254
768	DNAJB4	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	Ranked	210.946	221.225	1.04873
	EIF5	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	Squared	12108.4	14114.6	1.16569
	RHOA	transforming protein rhoa (h12). [swissprot;acc:p06749]	Rooted	63.5181	67.7402	1.06647
	UBE2V2	ubiquitin-conjugating enzyme e2 variant 2; 1 alpha,25-dihydroxyvitamin d3-inducible; enterocyte differentiation promoting factor; methyl methanesulfonate sensitive 2, s. cerevisiae, homolog of. [refseq;acc:nm_003350]	Measured	6690.44	7443.29	1.11253
769	no value	60s ribosomal protein l39. [swissprot;acc:p02404]	Rooted	55.6817	59.3786	1.06639
	ATP6V1F	vacuolar atp synthase subunit f (ec 3.6.3.14) (v-atpase f subunit) (vacuolar proton pump f subunit) (v-atpase 14 kda subunit). [swissprot;acc:q16864]	Measured	5873.77	6532.44	1.11214
	NAGS	n-acetylglutamate synthase. [refseq;acc:nm_153006]	Squared	20943	24412.8	1.16568
	PERLD1	cab2. [refseq;acc:nm_033419]	Ranked	210.946	221.225	1.04873
770	no value	60s ribosomal protein l18a. [swissprot;acc:q02543]	Rooted	55.6817	59.3786	1.06639
		vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670]	Measured	5874.74	6533.34	1.11211
	DNAJB5	dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]	Ranked	210.946	221.225	1.04873
	FBLN2	fibulin-2 precursor. [swissprot;acc:p98095]	Squared	45189.6	52666.2	1.16545
771	API5	apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595]	Measured	5874.74	6533.34	1.11211
	DNAJB1	dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685]	Ranked	210.946	221.225	1.04873
	QRSL1	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292]	Squared	24418	28453.7	1.16528
	RPS19	40s ribosomal protein s19. [swissprot;acc:p39019]	Rooted	55.6817	59.3786	1.06639
772	ETF1	eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]	Ranked	210.946	221.225	1.04873
	FAAH	fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [swissprot;acc:o00519]	Squared	24418	28453.7	1.16528
	RPL31	60s ribosomal protein l31. [swissprot;acc:p12947]	Rooted	55.6817	59.3786	1.06639
	SEC13	sec13-related protein. [swissprot;acc:p55735]	Measured	5874.76	6533.36	1.11211
773	ATP6V1G3	vacuolar atp synthase subunit g 3 (ec 3.6.3.14) (v-atpase g subunit 3) (vacuolar proton pump g subunit 3) (v-atpase 13 kda subunit 3). [swissprot;acc:q96lb4]		5874.74	6533.34
	COTL1	coactosin-like protein. [swissprot;acc:q14019]	Squared	24418	28453.7	1.16528
	PPP1CC	serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873]	Rooted	127.967	120.003	1.06637
	VPS52	suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]	Ranked	210.946	221.225	1.04873
774	DPM1	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762]	Rooted	65.3248	69.648	1.06618
	MCFD2	multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279]	Ranked	225.996	215.535	1.04854
	SEC31A	yeast sec31p homolog. [refseq;acc:nm_014933]	Measured	5874.76	6533.36	1.11211
	UNG	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [swissprot;acc:p13051]	Squared	24418	28453.7	1.16528
775	no value	histone deacetylase 2 (hd2). [swissprot;acc:q92769]	Ranked	226.003	215.541	1.04854
	ATP6V1G1	vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348]	Measured	5874.74	6533.33	1.11211
	CLTC	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	Rooted	62.2385	58.38	1.06609
	PET112L	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]	Squared	24418	28453.7	1.16528

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.