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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 1068 to 1117 of 9634 in total

Value Type

: Measured
Network Comparison Type

: Divided

Rank	description	Interaction Map	Filtered	red	green	network_comparison
267	zinc finger protein 354a (transcription factor 17) (zinc finger protein eznf). [swissprot;acc:o60765]	Low confidence	0	2352.95	1969.92	1.19444
268	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	High confidence	1	24473.9	20127.8	1.21593
	far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902]	High confidence	0	604.529	538.094	1.12346
	reversion-inducing cysteine-rich protein with kazal motifs precursor (hreck) (suppressor of tumorigenicity 15) (st15). [swissprot;acc:o95980]	Low confidence	1	8813.83	9348.71	1.06069
	zinc finger protein 155. [swissprot;acc:q12901]	Low confidence	0	2352.95	1969.92	1.19444
269	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	High confidence	0	1217.92	1367.83	1.12309
	choline phosphotransferase 1; cholinephosphotransferase 1 alpha; cholinephosphotransferase 1. [refseq;acc:nm_020244]	Low confidence	1	8813.95	9348.9	1.06069
	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	High confidence	1	4590.18	5575.52	1.21466
	zinc finger protein 2. [refseq;acc:nm_021088]	Low confidence	0	2353.11	1970.07	1.19443
270	carboxypeptidase a5. [refseq;acc:nm_080385]	Low confidence	1	8811.88	9345.51	1.06056
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	High confidence	1	23640.2	19479.8	1.21358
	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	High confidence	0	1217.96	1367.88	1.12309
	zinc finger protein 19 (zinc finger protein kox12) (fragment). [swissprot;acc:p17023]	Low confidence	0	2353.04	1970.01	1.19443
271	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086]	Low confidence	1	8811.69	9345.26	1.06055
	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	High confidence	1	2554.89	3093.78	1.21092
	histone h4. [swissprot;acc:p02304]	High confidence	0	21773.1	24446.3	1.12278
	zinc finger protein zfp-36 (fragment). [swissprot;acc:p16415]	Low confidence		2353.27	1970.21	1.19443
272	60s ribosomal protein l15. [swissprot;acc:p39030]	High confidence		846.216	753.793	1.12261
	delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial precursor (ec 1.5.1.12) (p5c dehydrogenase). [swissprot;acc:p30038]	Low confidence	1	11162	10526.2	1.0604
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	High confidence	1	3858.52	4669.27	1.21012
	zinc finger protein 134. [swissprot;acc:p52741]	Low confidence	0	2353.38	1970.32	1.19442
273	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	High confidence	1	3199.4	3870.8	1.20985
	phospholipase a-2-activating protein (plap) (pla2p). [swissprot;acc:q9y263]	Low confidence	1	11162	10526.2	1.0604
	sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626]	High confidence	0	1410.81	1582.65	1.1218
	zinc finger protein 337. [swissprot;acc:q9y3m9]	Low confidence		2353.42	1970.36	1.19441
274	brain protein 16. [refseq;acc:nm_016458]	High confidence		2155.75	2418.14	1.12172
	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	High confidence	1	3119.98	2579.49	1.20953
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Low confidence	1	7718.85	8184.75	1.06036
	zinc finger protein 358. [swissprot;acc:q9nw07]		0	2353.63	1970.55	1.1944
275	novel c2h2 type zinc finger protein. [refseq;acc:nm_024325]		0	2353.74	1970.65	1.1944
	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	High confidence	1	3119.98	2579.49	1.20953
	swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075]	High confidence	0	717.401	804.725	1.12172
	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	Low confidence	1	7506.19	7958.12	1.06021
276	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	High confidence	0	10817.1	12125.1	1.12092
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	High confidence	1	3119.98	2579.49	1.20953
	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]	Low confidence	1	7762.71	8229.36	1.06011
	zinc finger protein 230 (zinc finger protein fdzf2). [swissprot;acc:q9uie0]	Low confidence	0	2353.79	1970.7	1.19439
277	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	High confidence	0	870.93	975.647	1.12024
	dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080]	Low confidence	1	7900.15	8374.91	1.0601
	krab zinc finger protein hzf26 (fragment). [sptrembl;acc:q9bze6]	Low confidence	0	2353.9	1970.8	1.19439
	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	High confidence	1	3119.98	2579.49	1.20953
278	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]	Low confidence	1	7762.96	8229.42	1.06009
	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	High confidence	0	2162.33	1932	1.11922
	transcription factor lbx1. [swissprot;acc:p52954]	High confidence	1	3119.98	2579.49	1.20953
	zinc finger protein 195. [swissprot;acc:o14628]	Low confidence	0	2353.86	1970.76	1.19439
279	cell adhesion molecule with homology to l1cam precursor; neural cell adhesion molecule; cell adhesion molecule l1-like; l1 cell adhesion molecule 2. [refseq;acc:nm_006614]	High confidence	0	545.902	610.424	1.11819
	dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434]	Low confidence	1	7900.92	8375.39	1.06005
	mosaic protein lgn. [swissprot;acc:p81274]	High confidence	1	3119.98	2579.49	1.20953
	zinc finger protein 233. [refseq;acc:nm_181756]	Low confidence	0	2354.06	1970.95	1.19438
280	diacylglycerol o-acyltransferase 1 (ec 2.3.1.20) (diglyceride acyltransferase) (acat related gene product 1). [swissprot;acc:o75907]	Low confidence	1	7902.9	8376.6	1.05994

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/