Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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

Results: HTML CSV LaTeX

Showing element 551 to 600 of 77072 in total

Filtered

: 0
Value Type

: Measured

green	Network Comparison Type	red	network_comparison	Interaction Map	Rank	description
378.206	Divided	292.152	1.29455	High confidence	147	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6]
378.206	Subtracted	292.152	86.054	High confidence	307
379.277	Divided	174.52	2.17326	Low confidence	55	selenoprotein t. [swissprot;acc:q9nzj3]
379.277	Subtracted	174.52	204.757	Low confidence	275	selenoprotein t. [swissprot;acc:q9nzj3]
379.474	Divided	293.178	1.29435	High confidence	148	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]
	Divided		1.29435		149	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]
	Subtracted		86.296		305	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]
	Subtracted		86.296		306	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]
384.407	Divided	210.767	1.82385		62	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]
384.407	Subtracted	210.767	173.64		187
384.733	Divided	470.251	1.22228		186	glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]
384.733	Subtracted	470.251	85.518		311
384.843	Divided	426.8	1.10902		295	adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5]
384.843	Subtracted	426.8	41.957		378
385.626	Divided	688.436	1.78524		66	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]
	Divided		1.78524	Low confidence	73
	Subtracted		302.81	High confidence	104
	Subtracted		302.81	Low confidence	194
391	Divided	294	1.32993		128	double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563]
391	Subtracted	294	97		443
399.534	Divided	348.823	1.14538	High confidence	233	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]
399.534	Subtracted	348.823	50.711		360
402	Divided	594	1.47761		100	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]
402	Subtracted	594	192		171
402.138	Divided	380.866	1.05585	Low confidence	520	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]
402.138	Subtracted	380.866	21.272	Low confidence	735
403.196	Divided	870.482	2.15895	High confidence	48	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]
403.196	Subtracted	870.482	467.286		61	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]
405.367	Divided	387.486	1.04615		385	40s ribosomal protein s28. [swissprot;acc:p25112]
405.367	Subtracted	387.486	17.881		430	40s ribosomal protein s28. [swissprot;acc:p25112]
410	Divided	556	1.3561	Low confidence	115	g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947]
	Divided		1.3561		116	g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250]
	Subtracted		146		335	g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947]
	Subtracted		146		336	g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250]
416.524	Divided	712.071	1.70956	High confidence	77	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268]
416.524	Subtracted	712.071	295.547		106
417.983	Divided	331.61	1.26047		167	transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675]
417.983	Subtracted	331.61	86.373		303
420.355	Divided	334.012	1.2585		168	transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525]
420.355	Subtracted	334.012	86.343		304
421	Divided	292	1.44178		108	basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]
421	Subtracted	292	129		245
426.641	Divided	374.834	1.13821	Low confidence	340	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]
426.641	Subtracted	374.834	51.807	Low confidence	596
429	Divided	426	1.00704	High confidence	477	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]
	Divided		1.00704	Low confidence	791
	Subtracted		3	High confidence	479
	Subtracted		3	Low confidence	811
430.121	Divided	553.827	1.28761		145	lipocalin-interacting membrane receptor. [refseq;acc:nm_018113]
430.121	Subtracted	553.827	123.706		390

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.

- http://analysis.yellowcouch.org/