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 1664 to 1713 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
832	TXNDC2	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243]	Subtracted	229.171	238.048	8.877
833	PSIP1	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	Divided	231.734	222.222	1.0428
	TXN	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599]	Subtracted	229.171	238.048	8.877
834	no value	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]		230.768	239.632	8.864
	RPL8	60s ribosomal protein l8. [swissprot;acc:p25120]	Divided	231.734	222.222	1.0428
835	HDGF	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]
	HNRPK	heterogeneous nuclear ribonucleoprotein k (hnrnp k) (dc-stretch binding protein) (csbp) (transformation upregulated nuclear protein) (tunp). [swissprot;acc:q07244]	Subtracted	224.413	233.272	8.859
836	HDGFL1	pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [refseq;acc:nm_138574]	Divided	231.734	222.222	1.0428
	PRPF4	u4/u6 small nuclear ribonucleoprotein prp4 (u4/u6 snrnp 60 kda protein) (wd splicing factor prp4) (hprp4). [swissprot;acc:o43172]	Subtracted	224.413	233.272	8.859
837	DDX6	probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196]	Divided	231.734	222.222	1.0428
	SSRP1	structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945]	Subtracted	237.62	228.762	8.858
838	SUPT16H	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]
	TMEM131	rw1 protein (fragment). [swissprot;acc:q92545]	Divided	231.734	222.222	1.0428
839	no value	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	Subtracted	230.764	239.62	8.856
	CLEC11A	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	Divided	177.776	170.499	1.04268
840	DEAF1	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398]	Subtracted	236.741	245.547	8.806
	TOMM20	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	Divided	198.781	190.66	1.04259
841	PEX19	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855]
	RIOK1	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]	Subtracted	236.741	245.547	8.806
842	CCDC22	jm1 protein. [refseq;acc:nm_014008]	Divided	219.762	210.806	1.04248
	MARK1	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]	Subtracted	236.741	245.547	8.806
843	GART	trifunctional purine biosynthetic protein adenosine-3 [includes: phosphoribosylamine--glycine ligase (ec 6.3.4.13) (gars) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase); phosphoribosylformylglycinamidine cyclo-ligase (ec 6.3.3.1) (airs) (phosphoribosyl-aminoimidazole synthetase) (air synthase); phosphoribosylglycinamide formyltransferase (ec 2.1.2.2) (gart) (gar transformylase) (5'-phosphoribosylglycinamide transformylase)]. [swissprot;acc:p22102]	Divided	218.521	227.796	1.04244
	MARK2	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]	Subtracted	236.741	245.547	8.806
844	CLEC3A	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	Divided	178.033	170.82	1.04223
	SPO11	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	Subtracted	236.741	245.547	8.806
845	HAO2	hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [swissprot;acc:q9nyq3]		232.512	241.288	8.776
	LSM1	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [swissprot;acc:o15116]	Divided	228.599	219.399	1.04193
846	no value	methyltransferase like 2. [refseq;acc:nm_018396]		147.211	153.371	1.04184
	CDC73	parafibromin. [refseq;acc:nm_024529]	Subtracted	239.704	230.991	8.713
847	DYNLT1	cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763]	Divided	147.211	153.371	1.04184
	MYCL1	l-myc-1 proto-oncogene protein. [swissprot;acc:p12524]	Subtracted	227.604	219.001	8.603
848	FZR1	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	Divided	147.211	153.371	1.04184
	WIPF1	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516]	Subtracted	206.214	197.614	8.6
849	C16orf80	transcription factor iib. [refseq;acc:nm_013242]		206.068	197.471	8.597
	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]	Divided	147.211	153.371	1.04184
850	CPSF4	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]		107.842	112.329	1.04161
	SFRS8	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	Subtracted	206.068	197.471	8.597
851	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Divided	107.842	112.329	1.04161
	MYCN	n-myc proto-oncogene protein. [swissprot;acc:p04198]	Subtracted	227.601	219.008	8.593
852	GABPA	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546]		227.596	219.017	8.579
	HPRT1	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	Divided	193.114	185.412	1.04154
853	no value	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545]	Subtracted	227.596	219.017	8.579
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	Divided	108.289	112.772	1.0414
854	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
	NDUFS8	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217]	Subtracted	227.596	219.017	8.579
855	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Divided	178.514	171.42	1.04138
	ELOVL1	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]	Subtracted	227.596	219.018	8.578
856	MYC	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]		227.585	219.037	8.548
	XPR1	xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736]	Divided	215.028	206.623	1.04068
857	MDN1	midasin (midas-containing protein). [swissprot;acc:q9nu22]	Subtracted	237.218	228.698	8.52

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.