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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1982 to 2031 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
991	EXOSC10	polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780]	Subtracted	198.494	205.466	6.972
992	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Divided	218.468	211.357	1.03364
	VCL	vinculin (metavinculin). [swissprot;acc:p18206]	Subtracted	215.92	208.95	6.97
993	HNF4G	hepatocyte nuclear factor 4-gamma (hnf-4-gamma). [swissprot;acc:q14541]		251.863	258.829	6.966
	PNN	pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687]	Divided	211.071	204.205	1.03362
994	GADD45G	growth arrest and dna-damage-inducible protein gadd45 gamma (cytokine responsive protein cr6). [swissprot;acc:o95257]	Subtracted	251.863	258.829	6.966
	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Divided	116.845	120.772	1.03361
995	GADD45A	growth arrest and dna-damage-inducible protein gadd45 alpha (dna- damage inducible transcript 1) (ddit1). [swissprot;acc:p24522]	Subtracted	251.863	258.829	6.966
	MAD2L2	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	Divided	219.656	212.547	1.03345
996	no value	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
	HNF4A	hepatocyte nuclear factor 4-alpha (hnf-4-alpha) (transcription factor hnf-4) (transcription factor 14). [swissprot;acc:p41235]	Subtracted	251.863	258.829	6.966
997	GADD45B	growth arrest and dna-damage-inducible protein gadd45 beta (negative growth-regulatory protein myd118) (myeloid differentiation primary response protein myd118). [swissprot;acc:o75293]
	NUP88	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]	Divided	219.656	212.547	1.03345
998	DYNC1I2	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]		225.557	218.271	1.03338
	TYRL	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	Subtracted	221.302	214.409	6.893
999	FHL2	skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192]		269.608	276.493	6.885
	VCL	vinculin (metavinculin). [swissprot;acc:p18206]	Divided	215.92	208.95	1.03336
1000	no value	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]		225.167	217.922	1.03325
	CROT	peroxisomal carnitine octanoyltransferase (ec 2.3.1.-) (cot). [swissprot;acc:q9ukg9]	Subtracted	217.523	210.648	6.875
1001	DCT	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126]		221.28	214.409	6.871
	SPRY3	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]	Divided	225.167	217.922	1.03325
1002	SPRY1	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]
	TYRP1	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	Subtracted	221.278	214.409	6.869
1003	PNN	pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687]		211.071	204.205	6.866
	SPRY2	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]	Divided	225.167	217.922	1.03325
1004	no value	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]		238.725	231.059	1.03318
	FHL3	skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643]	Subtracted	269.59	276.454	6.864
1005	DKC1	dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832]		231.007	237.864	6.857
	DYNC1I1	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	Divided	225.448	218.232	1.03307
1006	CPSF3	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]		116.524	120.375	1.03305
	RBL2	retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999]	Subtracted	217.026	210.189	6.837
1007	RALGDS	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	Divided	162.055	156.884	1.03296
	RBL1	retinoblastoma-like protein 1 (107 kda retinoblastoma-associated protein) (prb1) (p107). [swissprot;acc:p28749]	Subtracted	217.021	210.185	6.836
1008	DDB1	dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]		222.364	215.535	6.829
	WDR46	wd-repeat protein bing4. [swissprot;acc:o15213]	Divided	243.227	235.475	1.03292
1009	no value	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]		229.116	221.823	1.03288
	PCCB	propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166]	Subtracted	222.364	215.535	6.829
1010	ATXN2L	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]		228.105	221.293	6.812
	CROT	peroxisomal carnitine octanoyltransferase (ec 2.3.1.-) (cot). [swissprot;acc:q9ukg9]	Divided	217.523	210.648	1.03264
1011	no value	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	Subtracted	228.105	221.293	6.812
	RBL2	retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999]	Divided	217.026	210.189	1.03253
1012	KPNA4	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	Subtracted	217.369	210.561	6.808
	RBL1	retinoblastoma-like protein 1 (107 kda retinoblastoma-associated protein) (prb1) (p107). [swissprot;acc:p28749]	Divided	217.021	210.185	1.03252
1013	HEATR1	protein bap28. [swissprot;acc:q9h583]		244.312	236.647	1.03239
	TOE1	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	Subtracted	217.365	210.558	6.807
1014	AATF	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	Divided	243.045	235.422	1.03238
	KPNA3	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	Subtracted	217.361	210.554	6.807
1015	EXOC3	exocyst complex component sec6. [swissprot;acc:o60645]		207.186	200.398	6.788
	MAGI1	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	Divided	221.73	228.906	1.03236
1016	KPNA4	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]		217.369	210.561	1.03233

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.