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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 1610 to 1659 of 29840 in total

Interaction Map  : High confidence

Rank	description	Value Type	Network Comparison Type	Filtered	red	green	network_comparison
101	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	Rooted	Divided	0	12.6886	9.74679	1.30182
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Ranked		1	88.2482	110.265	1.24949
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]		Subtracted		204.641	161.051	43.59
	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7]	Measured	Divided	0	1442	977	1.47595
	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		Subtracted	1	14924.4	17655.2	2730.8
	septin 6. [swissprot;acc:q14141]	Squared			88953.6	124854	35900.4
	transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]		Divided	0	956.375	441.285	2.16725
102	60s ribosomal protein l18a. [swissprot;acc:q02543]	Ranked			12738.7	10437.1	1.22052
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Measured	Subtracted	1	11068	8508.5	2559.5
	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Rooted			19.9625	35.798	15.8355
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Squared	Divided		214143	138337	1.54798
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Ranked	Subtracted		204.642	161.068	43.574
	glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]	Rooted		0	20.0501	15.3244	4.7257
	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292]	Ranked			7168	5102	2066
	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]		Divided	1	88.2482	110.265	1.24949
	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	Squared	Subtracted	0	5294.83	3966.41	1328.42
	p28 ing5. [refseq;acc:nm_032329]	Measured			2551.23	2243.69	307.54
	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]		Divided		1442	977	1.47595
	pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]	Squared	Subtracted	1	121200	85473.4	35726.6
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Measured	Divided		2353.63	3225.65	1.3705
	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Rooted			47.6504	36.9304	1.29028
	ribulose-5-phosphate-3-epimerase; ribulose 5-phosphate 3-epimerase. [refseq;acc:nm_006916]	Squared		0	61.6678	132.922	2.15545
	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854]	Rooted			12.0669	15.6768	1.29916
103	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	Measured		1	2353.63	3225.65	1.3705
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Rooted	Subtracted		19.9625	35.798	15.8355
	dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513]	Ranked	Divided	0	7495.26	9130.38	1.21815
	high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9]		Subtracted		18809.5	16764.2	2045.3
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Measured			630.942	327.517	303.425
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Squared	Divided	1	407289	263351	1.54656
	orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466]		Subtracted	0	79185.5	77891.7	1293.8
	prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765]	Rooted	Divided		17.1172	22.2036	1.29715
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]			1	60.8365	77.7233	1.27758
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Measured	Subtracted		11068	8508.5	2559.5
	symplekin. [swissprot;acc:q92797]	Squared			124118	88668.8	35449.2
	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	Rooted		0	27.4578	22.8323	4.6255
	thiamin pyrophosphokinase 1; mouse thiamin pyrophosphokinase homolog; thiamine pyrophosphokinase. [refseq;acc:nm_022445]	Squared	Divided		61.6678	132.922	2.15545
	transcription factor jun-b. [swissprot;acc:p17275]	Ranked	Subtracted	1	201.144	158.868	42.276
	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854]	Measured	Divided	0	197.333	290.667	1.47298
	trophinin. [swissprot;acc:q12816]	Ranked		1	88.2482	110.265	1.24949
104	26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	Squared	Subtracted	0	8620.27	7355.46	1264.81
	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Measured		1	11068	8508.5	2559.5
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Squared	Divided		407289	263351	1.54656
	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	Rooted		0	13.7413	17.8164	1.29656
	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Ranked		1	252.371	202.016	1.24926
	jun dimerization protein. [refseq;acc:nm_130469]	Rooted			60.8365	77.7233	1.27758
	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	Squared	Subtracted		121579	87259.3	34319.7
	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]		Divided	0	0.70501	1.50296	2.13183
	musashi 2 isoform a. [refseq;acc:nm_138962]	Measured		1	4241.57	5810.79	1.36996
	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]			0	5106.93	7500.75	1.46874
	prefoldin subunit 3 (von hippel-lindau binding protein 1) (vhl binding protein-1) (vbp-1) (hibbj46). [swissprot;acc:q15765]	Ranked			9545	7868	1.21314

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
- 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.