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 1630 to 1679 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Hugo	Interaction Map	red	green	network_comparison
815	syntaxin 1b. [swissprot;acc:q15531]	STX1B	High confidence	212.386	221.785	1.04425
816	m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304]	CDC25A	Low confidence	207.541	202.25	1.02616
	melanoma antigen p15 (melanoma-associated antigen recognized by t lymphocytes). [swissprot;acc:q13084]	MRPL28	High confidence	212.386	221.785	1.04425
817	dna-binding protein rfxank (regulatory factor x subunit b) (rfx-b) (ankyrin repeat family a protein 1). [swissprot;acc:o14593]	RFXANK
	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	LSM6	Low confidence	202.15	197.002	1.02613
818	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]	RGL1	High confidence	168.592	161.452	1.04422
	serine hydrolase-like protein (ec 3.1.-.-). [swissprot;acc:q9h4i8]	SERHL2	Low confidence	208.488	203.181	1.02612
819	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]	no value
	dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [swissprot;acc:p36954]	POLR2I	High confidence	228.563	238.668	1.04421
820	actin binding lim protein 2. [refseq;acc:nm_032432]	ABLIM2	Low confidence	208.488	203.181	1.02612
	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399]	MRPS2	High confidence	221.716	231.501	1.04413
821	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]	PEX5	Low confidence	208.488	203.181	1.02612
	u3 snornp protein 4 homolog. [refseq;acc:nm_033416]	IMP4	High confidence	221.676	231.453	1.0441
822	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]	ABLIM1	Low confidence	208.488	203.181	1.02612
	eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884]	EIF3B	High confidence	243.067	232.805	1.04408
823	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	RRAGC	Low confidence	186.275	181.537	1.0261
	transcription factor iib. [refseq;acc:nm_013242]	C16orf80	High confidence	206.068	197.471	1.04354
824	olf-1/ebf associated zinc finger protein; smad- and olf-interacting zinc finger protein. [refseq;acc:nm_015069]	ZNF423	Low confidence	204.922	199.711	1.02609
	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	SFRS8	High confidence	206.068	197.471	1.04354
825	early hematopoietic zinc finger. [refseq;acc:nm_015461]	no value	Low confidence	204.914	199.706	1.02608
	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516]	WIPF1	High confidence	206.214	197.614	1.04352
826	60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]	HTATIP		223.186	213.912	1.04335
	cathepsin b precursor (ec 3.4.22.1) (cathepsin b1) (app secretase). [swissprot;acc:p07858]	CTSB	Low confidence	201.026	195.916	1.02608
827	loh1cr12. [refseq;acc:nm_058169]	LOH12CR1	High confidence	230.087	220.579	1.0431
	serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [swissprot;acc:o15269]	SPTLC1	Low confidence	207.116	201.851	1.02608
828	cytochrome c oxidase subunit iv isoform 1, mitochondrial precursor (ec 1.9.3.1) (cox iv-1) (cytochrome c oxidase polypeptide iv). [swissprot;acc:p13073]	COX4I1		204.206	199.02	1.02606
	unr protein. [swissprot;acc:o75534]	CSDE1	High confidence	230.087	220.579	1.0431
829	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]	SEPT4		135.844	130.259	1.04288
	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	PAK3	Low confidence	202.608	197.472	1.02601
830	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	FTSJ3		201.067	195.971	1.026
	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	PARK2	High confidence	231.734	222.222	1.0428
831	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	no value
	trimethyllysine dioxygenase, mitochondrial precursor (ec 1.14.11.8) (epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (tml-alpha- ketoglutarate dioxygenase) (tml hydroxylase) (tml dioxygenase) (tmld). [swissprot;acc:q9nvh6]	TMLHE	Low confidence	204.064	198.895	1.02599
832	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	no value	High confidence	231.734	222.222	1.0428
	gamma-aminobutyric acid type b receptor, subunit 2 precursor (gaba-b receptor 2) (gaba-b-r2) (gb2) (gababr2) (g protein-coupled receptor 51) (gpr 51) (hg20). [swissprot;acc:o75899]	GABBR2	Low confidence	204.064	198.895	1.02599
833	gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]	ERAL1
	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	PSIP1	High confidence	231.734	222.222	1.0428
834	60s ribosomal protein l8. [swissprot;acc:p25120]	RPL8
	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	TYRL	Low confidence	206.26	201.038	1.02598
835	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]	HDGF	High confidence	231.734	222.222	1.0428
	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	PAK2	Low confidence	202.578	197.45	1.02597
836	pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [refseq;acc:nm_138574]	HDGFL1	High confidence	231.734	222.222	1.0428
	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	RRM1	Low confidence	202.357	197.234	1.02597
837	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	no value		194.47	189.552	1.02595
	probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196]	DDX6	High confidence	231.734	222.222	1.0428
838	lactoylglutathione lyase (ec 4.4.1.5) (methylglyoxalase) (aldoketomutase) (glyoxalase i) (glx i) (ketone-aldehyde mutase) (s-d-lactoylglutathione methylglyoxal lyase). [swissprot;acc:q04760]	GLO1	Low confidence	194.47	189.552	1.02595
	rw1 protein (fragment). [swissprot;acc:q92545]	TMEM131	High confidence	231.734	222.222	1.0428
839	lysophospholipase i; lysophospholipase 1; lysophospholipid-specific lysophospholipase; acyl-protein thioesterase-1. [refseq;acc:nm_006330]	LYPLA1	Low confidence	194.47	189.552	1.02595
	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	CLEC11A	High confidence	177.776	170.499	1.04268
840	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	TOMM20		198.781	190.66	1.04259

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.