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 651 to 700 of 3730 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	Filtered	red	green	network_comparison
326	60s ribosomal protein l5. [swissprot;acc:p46777]	1	241.899	265.924	1.09932
	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655]	0	11948.4	11295.6	1.05779
327	3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]		9897.29	10466.5	1.05751
	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	1	243.817	267.962	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]		258.437	235.183	1.09888
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	0	10897	11520	1.05717
329	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	1	312	284	1.09859
	signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556]	0	15977.3	15115.5	1.05701
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	1	312	284	1.09859
	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	0	12320.2	13018.5	1.05668
331	40s ribosomal protein s3a. [swissprot;acc:p49241]		10405.1	10992.4	1.05644
	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	1	312	284	1.09859
332	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	0	8125.5	7697.5	1.0556
	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	1	312	284	1.09859
333	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	0	8125.5	7697.5	1.0556
	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	1	312	284	1.09859
334	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	0	8125.5	7697.5	1.0556
	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	1	312	284	1.09859
335	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	0	8125.5	7697.5	1.0556
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]	1	312	284	1.09859
	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	0	8125.5	7697.5	1.0556
337	60s ribosomal protein l12. [swissprot;acc:p30050]	1	243.583	267.527	1.0983
	glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210]	0	12953.2	12273.2	1.05541
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	1	243.583	267.528	1.0983
	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	0	11149.7	10571.4	1.0547
339	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	1	243.583	267.527	1.0983
	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]	0	10344.1	10903.3	1.05406
340	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]		11372.3	10792.3	1.05374
	myelin gene expression factor 2. [refseq;acc:nm_016132]	1	235.383	258.476	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]		240.243	263.798	1.09805
	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]	0	8702.94	9169.98	1.05366
342	40s ribosomal protein s20. [swissprot;acc:p17075]	1	243.5	267.21	1.09737
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	0	10074	10609	1.05311
343	casein kinase i alpha s-like. [refseq;acc:nm_145203]		8356.31	8788.62	1.05173
	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	1	241.625	265.136	1.0973
344	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]	0	10540.6	10027.6	1.05116
345	alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766]		11563.7	12151.8	1.05086
	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	1	242.14	265.697	1.09729
346	40s ribosomal protein s3. [swissprot;acc:p23396]		241.612	265.119
	rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427]	0	9267.81	9736.2	1.05054
347	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]		7670	7311	1.0491
	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	1	242.14	265.697	1.09729
348	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]			265.696	1.09728
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	0	16321	15577	1.04776
349	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
	surfeit locus protein 5. [swissprot;acc:q15528]	1	242.14	265.696	1.09728
350	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	0	16321	15577	1.04776
	zinc finger protein 291. [swissprot;acc:q9by12]	1	242.14	265.696	1.09728

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.