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	network_comparison	green

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Showing element 558 to 607 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
35	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Squared	Subtracted	High confidence	106226	85915	192141
	SPAG7	sperm associated antigen 7. [refseq;acc:nm_004890]	Rooted		Low confidence	132.137	9.401	122.736
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Ranked	Divided		297.273	1.14959	258.59
36	no value	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	Subtracted		82347.8	20466.3	61881.5
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Rooted	Divided		55.7086	1.15273	64.217
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked	Subtracted		267.376	26.596	240.78
	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]	Squared		High confidence	227160	81081	146079
	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Measured	Divided	Low confidence	6462.09	1.17513	7593.77
	GNAZ	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]			High confidence	1836.76	2.02344	907.741
			Rooted			40.2805	1.65294	24.369
	MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Measured	Subtracted		23693.7	5430.7	18263
	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Squared	Divided	Low confidence	82347.8	1.33073	61881.5
	NFYA	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Ranked		High confidence	260.532	1.27519	204.309
	PANK1	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Squared			106226	1.80879	192141
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Rooted	Subtracted		26.0288	17.1626	43.1914
	PRKRAP1	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	Ranked			320.927	66.493	254.434
	SON	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	Rooted		Low confidence	51.3588	9.3782	60.737
	TEGT	bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	Measured			23239.9	1736.6	21503.3
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Ranked	Divided		296.837	1.14906	258.33
37	no value	jun dimerization protein. [refseq;acc:nm_130469]	Measured			6462.09	1.17513	7593.77
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]		Subtracted	High confidence	23693.7	5430.7	18263
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Ranked	Divided	Low confidence	250.244	1.14874	217.843
	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Rooted	Subtracted		66.5831	8.8233	75.4064
	GNAT1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Measured	Divided	High confidence	1836.76	2.02339	907.763
			Rooted			40.2805	1.65293	24.3691
	GNB1	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	Ranked	Subtracted		266.716	66.449	333.165
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]			Low confidence	234.802	26.178	260.98
	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Squared		High confidence	227160	81081	146079
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]			Low confidence	82347.8	20466.3	61881.5
	MAGEF1	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]		Divided			1.33073
	MFAP4	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Rooted	Subtracted	High confidence	26.0288	17.1626	43.1914
	PANK2	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Squared	Divided		106226	1.80879	192141
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Ranked			322	1.27273	253
	RHBDL1	rhomboid-related protein 1 (ec 3.4.21.-) (rrp) (rhomboid-like protein 1). [swissprot;acc:o75783]	Measured	Subtracted	Low confidence	23239.9	1736.6	21503.3
	TEX28P2	testis-specific protein tex28. [swissprot;acc:o15482]	Rooted	Divided		51.7058	1.14428	59.166
38	no value	jun dimerization protein. [refseq;acc:nm_130469]		Subtracted		66.5831	8.8233	75.4064
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured			13195.9	1709.5	11486.4
	GNAT2	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]		Divided	High confidence	1836.76	2.02337	907.774
			Rooted			40.2804	1.65292	24.3692
	GNB4	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	Ranked	Subtracted		266.933	66.348	333.281
	GNPDA2	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]		Divided	Low confidence	247.202	1.14456	282.937
	GOSR2	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	Rooted			51.7058	1.14428	59.166
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked	Subtracted		234.802	26.178	260.98
	MAGEA10	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Measured		High confidence	23693.7	5430.7	18263
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Squared		Low confidence	82347.8	20466.3	61881.5
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]		Divided			1.33073
	MFAP4	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Ranked		High confidence	322	1.27273	253
	PANK3	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Squared			106226	1.80879	192141
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Rooted	Subtracted		26.0288	17.1626	43.1914
	RAB11FIP4	rab11-family interacting protein 4. [refseq;acc:nm_032932]	Measured	Divided	Low confidence	7407.56	1.17403	8696.7

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.