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

Results: HTML CSV LaTeX

Showing element 2608 to 2657 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	red	green	network_comparison
652	Rooted	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]	64.5672	69.6254	1.07834
653	Measured	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	5560.06	6248.27	1.12378
	Ranked	dok-like protein. [refseq;acc:nm_024872]	216.504	204.622	1.05807
	Squared	testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]	29012.4	34164	1.17757
	Rooted	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069]	64.4927	69.539	1.07825
654	Measured	histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351]	4088.63	4593.43	1.12346
	Ranked	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	216.504	204.622	1.05807
	Squared	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	27174.1	31992.4	1.17731
	Rooted	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]	59.9021	64.5838	1.07816
655	Measured	dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]	4088.63	4593.43	1.12346
	Ranked	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	216.504	204.622	1.05807
	Squared	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]	27174.1	31992.4	1.17731
	Rooted	hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [refseq;acc:nm_152794]	59.9021	64.5838	1.07816
656	Measured	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	6139.04	6893.7	1.12293
	Ranked	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	216.504	204.622	1.05807
	Squared	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]	27174.1	31992.4	1.17731
	Rooted	single-minded homolog 1. [swissprot;acc:p81133]	59.9021	64.5838	1.07816
657	Measured	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	6079.26	6824.47	1.12258
	Ranked	synapsin iii. [swissprot;acc:o14994]	229.072	216.576	1.0577
	Squared	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]	27174.1	31992.4	1.17731
	Rooted	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	64.75	69.8065	1.07809
658	Measured	apical-like protein (apxl protein). [swissprot;acc:q13796]	6088.77	6834.87	1.12254
	Ranked	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]	229.072	216.576	1.0577
	Squared	similar to trna synthetase class ii. [refseq;acc:nm_152268]	22293.8	26242.6	1.17713
	Rooted	eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884]	52.7523	56.8686	1.07803
659	Measured	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	6089.21	6835.34	1.12253
	Ranked	hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]	229.072	216.576	1.0577
	Squared	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	24614	28973.4	1.17711
	Rooted	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	51.7081	47.9816	1.07767
660	Measured	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	5575.18	6254.85	1.12191
	Ranked	actin binding lim protein 2. [refseq;acc:nm_032432]	229.072	216.576	1.0577
	Squared	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9]	33024.9	38867.8	1.17692
	Rooted	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	133.216	123.627	1.07756
661	Measured	step ii splicing factor slu7. [refseq;acc:nm_006425]	5575.18	6254.85	1.12191
	Ranked	hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]	229.072	216.576	1.0577
	Squared	delta-aminolevulinic acid dehydratase (ec 4.2.1.24) (porphobilinogen synthase) (aladh). [swissprot;acc:p13716]	22223.1	26152.4	1.17681
	Rooted	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]	68.8243	74.1496	1.07738
662	Measured	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4]	6374.65	7145.59	1.12094
	Ranked	synapsin ii. [swissprot;acc:q92777]	229.072	216.576	1.0577
	Squared	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	23947.4	28163.7	1.17607
	Rooted	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5]	68.8237	74.1484	1.07737
663	Measured	tubby protein homolog. [swissprot;acc:p50607]	6374.65	7145.59	1.12094
	Ranked	mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]	229.072	216.576	1.0577
	Squared	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	23947.7	28163.9	1.17606
	Rooted	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [swissprot;acc:q9ubu9]	68.8197	74.1413	1.07733
664	Measured	protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [swissprot;acc:p41743]	6374.65	7145.59	1.12094
	Ranked	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]	229.072	216.576	1.0577
	Squared	ubiquitin-like protein smt3a. [swissprot;acc:p55854]	23948	28164.1	1.17605
	Rooted	neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863]	51.6042	55.574	1.07693
665	Measured	numb protein homolog (h-numb) (protein s171). [swissprot;acc:p49757]	6374.65	7145.59	1.12094

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.