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	Value Type	Network Comparison Type	Hugo	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 636 to 685 of 6456 in total

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

Rank	description	Network Comparison Type	Hugo	red	green	network_comparison
318	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	Divided	MRPL3	242.011	266.18	1.09987
319	60s ribosomal protein l19. [swissprot;acc:p14118]		RPL19	240.73	264.729	1.09969
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Subtracted	MAGEB4	88.2482	110.265	22.0168
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	Divided	CDH1	241.892	265.96	1.0995
	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	Subtracted	MAGED2	88.2482	110.265	22.0168
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Divided	no value	241.892	265.959	1.09949
	trophinin. [swissprot;acc:q12816]	Subtracted	TRO	88.2482	110.265	22.0168
322	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Divided	DNASE2B	86.7483	78.8995	1.09948
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Subtracted	RRM2	231.969	210.064	21.905
323	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]		RPS14	242.238	264.11	21.872
	60s ribosomal protein l23a. [swissprot;acc:p29316]	Divided	no value	241.884	265.945	1.09947
324	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	Subtracted		242.238	264.11	21.872
	40s ribosomal protein s23. [swissprot;acc:p39028]	Divided	RPS23	243.944	268.195	1.09941
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]		MRPS12
	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	Subtracted	MRPL13	241.828	263.62	21.792
326	40s ribosomal protein s16. [swissprot;acc:p17008]		RPS16
	60s ribosomal protein l5. [swissprot;acc:p46777]	Divided	RPL5	241.899	265.924	1.09932
327	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	Subtracted	RPL13A	241.83	263.615	21.785
	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	Divided	POLR2A	243.817	267.962	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]		DDX24	258.437	235.183	1.09888
	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	Subtracted	no value	240.801	262.34	21.539
329	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		LASS2	191.644	170.192	21.452
	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Divided	NEUROD2	312	284	1.09859
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]		CHD3
	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	Subtracted	BCAR1	224.657	203.235	21.422
331	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Divided	CDK2AP2	312	284	1.09859
	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	Subtracted	CCT4	224.647	203.242	21.405
332	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]		NEDD9	224.633	203.251	21.382
	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Divided	NEUROD6	312	284	1.09859
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]		NEUROD1
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Subtracted	no value	265.634	244.304	21.33
334	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Divided	NEUROD4	312	284	1.09859
	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	Subtracted	RRM2B	232.473	211.207	21.266
335	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	Divided	CHD5	312	284	1.09859
	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	Subtracted	SCYE1	223.273	202.423	20.85
336	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	Divided	CDK2AP1	312	284	1.09859
	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Subtracted	POLR1E	241.045	261.874	20.829
337	60s ribosomal protein l12. [swissprot;acc:p30050]	Divided	no value	243.583	267.527	1.0983
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	Subtracted	STT3B	200.691	179.88	20.811
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	Divided	no value	243.583	267.528	1.0983
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	Subtracted	STT3A	200.691	179.88	20.811
339	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	Divided	no value	243.583	267.527	1.0983
	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]	Subtracted	DDOST	200.691	179.88	20.811
340	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]		MRPS9	239.75	260.544	20.794
	myelin gene expression factor 2. [refseq;acc:nm_016132]	Divided	MYEF2	235.383	258.476	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]		no value	240.243	263.798	1.09805
	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	Subtracted	UQCRFSL1	240.788	261.416	20.628
342	40s ribosomal protein s20. [swissprot;acc:p17075]	Divided	RPS20	243.5	267.21	1.09737
	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	Subtracted	POLR1C	240.913	261.45	20.537
343	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	Divided	PRMT3	241.625	265.136	1.0973

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.