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 551 to 600 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	green	network_comparison
35	MAGEC1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Measured	Subtracted	High confidence	23693.7	18263	5430.7
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared		Low confidence	82347.8	61881.5	20466.3
	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		Divided	High confidence	106226	192141	1.80879
	NDN	necdin. [swissprot;acc:q99608]			Low confidence	82347.8	61881.5	1.33073
	NFYC	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	Ranked		High confidence	260.532	204.309	1.27519
	RGS12	regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924]	Rooted		Low confidence	54.8296	63.2347	1.15329
	RHBDL3	rhomboid-related protein 4 (ec 3.4.21.-) (ventrhoid transmembrane protein). [swissprot;acc:p58872]	Measured	Subtracted		23239.9	21503.3	1736.6
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Squared		High confidence	106226	192141	85915
	SPAG7	sperm associated antigen 7. [refseq;acc:nm_004890]	Rooted		Low confidence	132.137	122.736	9.401
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Ranked	Divided		297.273	258.59	1.14959
36	no value	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	Subtracted		82347.8	61881.5	20466.3
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Rooted	Divided		55.7086	64.217	1.15273
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked	Subtracted		267.376	240.78	26.596
	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	146079	81081
	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Measured	Divided	Low confidence	6462.09	7593.77	1.17513
	GNAZ	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]			High confidence	1836.76	907.741	2.02344
			Rooted			40.2805	24.369	1.65294
	MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Measured	Subtracted		23693.7	18263	5430.7
	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Squared	Divided	Low confidence	82347.8	61881.5	1.33073
	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	204.309	1.27519
	PANK1	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Squared			106226	192141	1.80879
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Rooted	Subtracted		26.0288	43.1914	17.1626
	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	254.434	66.493
	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	60.737	9.3782
	TEGT	bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	Measured			23239.9	21503.3	1736.6
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Ranked	Divided		296.837	258.33	1.14906
37	no value	jun dimerization protein. [refseq;acc:nm_130469]	Measured			6462.09	7593.77	1.17513
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]		Subtracted	High confidence	23693.7	18263	5430.7
	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	217.843	1.14874
	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Rooted	Subtracted		66.5831	75.4064	8.8233
	GNAT1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Measured	Divided	High confidence	1836.76	907.763	2.02339
			Rooted			40.2805	24.3691	1.65293
	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	333.165	66.449
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]			Low confidence	234.802	260.98	26.178
	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Squared		High confidence	227160	146079	81081
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]			Low confidence	82347.8	61881.5	20466.3
	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	43.1914	17.1626
	PANK2	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Squared	Divided		106226	192141	1.80879
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Ranked			322	253	1.27273
	RHBDL1	rhomboid-related protein 1 (ec 3.4.21.-) (rrp) (rhomboid-like protein 1). [swissprot;acc:o75783]	Measured	Subtracted	Low confidence	23239.9	21503.3	1736.6
	TEX28P2	testis-specific protein tex28. [swissprot;acc:o15482]	Rooted	Divided		51.7058	59.166	1.14428
38	no value	jun dimerization protein. [refseq;acc:nm_130469]		Subtracted		66.5831	75.4064	8.8233
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured			13195.9	11486.4	1709.5
	GNAT2	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]		Divided	High confidence	1836.76	907.774	2.02337
			Rooted			40.2804	24.3692	1.65292
	GNB4	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	Ranked	Subtracted		266.933	333.281	66.348
	GNPDA2	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]		Divided	Low confidence	247.202	282.937	1.14456
	GOSR2	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	Rooted			51.7058	59.166	1.14428
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked	Subtracted		234.802	260.98	26.178

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.