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

Results: HTML CSV LaTeX

Showing element 1308 to 1357 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
327	TRAPPC3	bet3 homolog. [swissprot;acc:o43617]	Divided	Low confidence	197.221	189.574	1.04034
328	no value	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	Subtracted	High confidence	240.801	262.34	21.539
	AFF1	af-4 protein (proto-oncogene af4) (fel protein). [swissprot;acc:p51825]		Low confidence	219.597	211.722	7.875
	DDX24	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Divided	High confidence	258.437	235.183	1.09888
	SF3B2	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]		Low confidence	203.162	195.289	1.04031
329	EXOC7	exocyst complex component exo70. [swissprot;acc:q9upt5]			204.124	212.339	1.04025
	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Subtracted	High confidence	191.644	170.192	21.452
	NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Divided		312	284	1.09859
	SF3B2	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]	Subtracted	Low confidence	203.162	195.289	7.873
330	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]		High confidence	224.657	203.235	21.422
	CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	Divided		312	284	1.09859
	RGN	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]		Low confidence	221.437	212.889	1.04015
	SPSB1	spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106]	Subtracted		219.556	211.692	7.864
331	CCT4	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]		High confidence	224.647	203.242	21.405
	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Divided		312	284	1.09859
	GALE	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]		Low confidence	200.249	192.535	1.04007
	NME7	nucleoside diphosphate kinase 7 (ec 2.7.4.6) (ndk 7) (ndp kinase 7) (nm23-h7). [swissprot;acc:q9y5b8]	Subtracted		210.796	202.935	7.861
332	DYNC1I1	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	Divided		209.495	201.474	1.03981
	NEDD9	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]	Subtracted	High confidence	224.633	203.251	21.382
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Divided		312	284	1.09859
	SPG20	spartin; trans-activated by hepatitis c virus core protein 1. [refseq;acc:nm_015087]	Subtracted	Low confidence	210.796	202.935	7.861
333	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]		High confidence	265.634	244.304	21.33
	C20orf43	protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	Divided	Low confidence	200.482	208.446	1.03972
	DYNC1I2	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]	Subtracted		209.221	201.38	7.841
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Divided	High confidence	312	284	1.09859
334	BICD2	coiled-coil protein bicd2; homolog of drosophila bicaudal d. [refseq;acc:nm_015250]		Low confidence	202.616	194.878	1.03971
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]		High confidence	312	284	1.09859
	RRM2B	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	Subtracted		232.473	211.207	21.266
	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]		Low confidence	199.905	192.123	7.782
335	BICD1	bicaudal d homolog 1; bicaudal-d, drosophila, homolog of, 1. [refseq;acc:nm_001714]	Divided		202.616	194.878	1.03971
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]		High confidence	312	284	1.09859
	RPP30	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	Subtracted	Low confidence	202.542	210.311	7.769
	SCYE1	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]		High confidence	223.273	202.423	20.85
336	CDK2AP1	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		312	284	1.09859
	DDOST	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	Low confidence	199.343	191.59	7.753
	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]		High confidence	241.045	261.874	20.829
	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Divided	Low confidence	202.616	194.878	1.03971
337	no value	60s ribosomal protein l12. [swissprot;acc:p30050]		High confidence	243.583	267.527	1.0983
	CDKL1	serine/threonine-protein kinase kkialre (ec 2.7.1.-) (cyclin-dependent kinase-like 1). [swissprot;acc:q00532]		Low confidence	201.873	194.181	1.03961
	DGCR14	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Subtracted		212.235	204.495	7.74
	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]		High confidence	200.691	179.88	20.811
338	no value	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	Divided		243.583	267.528	1.0983
	BICD2	coiled-coil protein bicd2; homolog of drosophila bicaudal d. [refseq;acc:nm_015250]	Subtracted	Low confidence	202.616	194.878	7.738
	STT3A	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]		High confidence	200.691	179.88	20.811
	TXNL4A	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]	Divided	Low confidence	202.572	194.86	1.03958
339	no value	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]		High confidence	243.583	267.527	1.0983
	BICD1	bicaudal d homolog 1; bicaudal-d, drosophila, homolog of, 1. [refseq;acc:nm_001714]	Subtracted	Low confidence	202.616	194.878	7.738
	DDOST	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]		High confidence	200.691	179.88	20.811
	GGPS1	geranylgeranyl pyrophosphate synthetase (ggpp synthetase) (ggppsase) (geranylgeranyl diphosphate synthase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10); farnesyltranstransferase (ec 2.5.1.29)]. [swissprot;acc:o95749]	Divided	Low confidence	209.518	201.554	1.03951
340	BET1L	blocked early in transport 1 homolog (s. cerevisiae) like; golgi snare 15 kda protein. [refseq;acc:nm_016526]			201.827	194.178	1.03939

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.