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 5480 to 5529 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
2740	neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004]	Subtracted	198.278	198.321	0.043
2741	transcription initiation factor tfiid 31 kda subunit (tafii-31) (tafii-32) (tafii32). [swissprot;acc:q16594]	Divided			1.00022
		Subtracted			0.043
2742	nuclear factor erythroid 2 related factor 1 (nf-e2 related factor 1) (nfe2-related factor 1) (nuclear factor, erythroid derived 2, like 1) (transcription factor 11) (transcription factor hbz17) (transcription factor lcr-f1) (locus control region-factor 1). [swissprot;acc:q14494]	Divided			1.00022
		Subtracted			0.043
2743	nuclear factor (erythroid-derived 2)-like 3; nf-e2-related factor 3. [refseq;acc:nm_004289]	Divided			1.00022
		Subtracted			0.043
2744	transcriptional adaptor 3-like isoform a. [refseq;acc:nm_006354]	Divided	201.476	201.514	1.00019
		Subtracted			0.038
2745	frg1 protein (fshd region gene 1 protein). [swissprot;acc:q14331]	Divided			1.00019
		Subtracted			0.038
2746	transcriptional adapter 2-like (ada2-like protein) (kl04p). [swissprot;acc:o75478]	Divided			1.00019
		Subtracted			0.038
2747	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]	Divided	201.477		1.00018
		Subtracted			0.037
2748	small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [swissprot;acc:o43765]	Divided	189.563	189.531	1.00017
		Subtracted			0.032
2749	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	Divided	190.522	190.496	1.00014
		Subtracted			0.026
2750	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]	Divided			1.00014
		Subtracted			0.026
2751	proteasome subunit alpha type 1 (ec 3.4.25.1) (proteasome component c2) (macropain subunit c2) (multicatalytic endopeptidase complex subunit c2) (proteasome nu chain) (30 kda prosomal protein) (pros-30). [swissprot;acc:p25786]	Divided	215.338	215.312	1.00012
		Subtracted			0.026
2752	p53-related protein kinase (ec 2.7.1.-) (nori-2). [swissprot;acc:q96s44]	Divided	221.7	221.716	1.00007
		Subtracted			0.016
2753	serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549]	Divided	208.859	208.846	1.00006
		Subtracted			0.013
2754	5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [swissprot;acc:p49914]	Divided	210.638	210.642	1.00002
		Subtracted			0.004
2755	deoxyhypusine synthase (ec 2.5.1.46) (dhs). [swissprot;acc:p49366]	Divided	212.403	212.401	1.00001
		Subtracted			0.002
2756	3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2757	nucleosome assembly protein 1-like 1 (nap-1 related protein). [swissprot;acc:p55209]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2758	nucleosome assembly protein 1-like 2 (brain-specific protein, x- linked). [swissprot;acc:q9ulw6]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2759	retinoic acid receptor rxr-alpha. [swissprot;acc:p19793]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2760	t-cell acute lymphocytic leukemia-2 protein (tal-2 protein). [swissprot;acc:q16559]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2761	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2762	developmentally regulated gtp-binding protein 1 (drg 1). [swissprot;acc:q9y295]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2763	ring finger protein 3. [refseq;acc:nm_006315]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2764	ras-related protein rab-11b (gtp-binding protein ypt3). [swissprot;acc:q15907]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2765	histone h2a.e (h2a/e). [swissprot;acc:q99878]	Divided	0.00001	0.00001	1

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.