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

Results: HTML CSV LaTeX

Showing element 6408 to 6456 of 6456 in total

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

description	Rank	Network Comparison Type	red	green	network_comparison
zinc finger protein 289, id1 regulated; likely ortholog of mouse zfp289. [refseq;acc:nm_032389]	2126	Divided	221.248	222.788	1.00696
zinc finger protein 291. [swissprot;acc:q9by12]	261	Subtracted	242.14	265.696	23.556
	350	Divided			1.09728
zinc finger protein 305. [swissprot;acc:o43309]	870	Subtracted	269.954	278.219	8.265
	1065	Divided			1.03062
zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]	1487		207.877	203.989	1.01906
	1499	Subtracted			3.888
zinc finger protein 444; endothelial zinc finger protein 2. [refseq;acc:nm_018337]	877		269.896	278.093	8.197
	1080	Divided			1.03037
zinc finger protein 99. [refseq;acc:nm_032164]	872	Subtracted	269.954	278.218	8.264
	1070	Divided			1.03061
zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [swissprot;acc:p08151]	2431	Subtracted	235.812	235.088	0.724
	2466	Divided			1.00308
zinc finger protein gli2 (tax helper protein). [swissprot;acc:p10070]	2436	Subtracted			0.724
	2471	Divided			1.00308
zinc finger protein gli3. [swissprot;acc:p10071]	2433	Subtracted			0.724
	2468	Divided			1.00308
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	1557		196.192	192.996	1.01656
	1631	Subtracted			3.196
zinc finger protein t86. [swissprot;acc:o00488]	505		246.805	231.796	15.009
	579	Divided			1.06475
zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915]	1315	Subtracted	218.569	213.832	4.737
	1348	Divided			1.02215
zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409]	1317	Subtracted	218.574	213.847	4.727
	1350	Divided			1.0221
zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481]	1316	Subtracted	218.572	213.841	4.731
	1349	Divided			1.02212
zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	1303	Subtracted	218.509	213.648	4.861
	1327	Divided			1.02275
zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782]	2190		209.54	208.162	1.00662
	2202	Subtracted			1.378
zinc finger-like protein 9. [refseq;acc:nm_033414]	471		250.942	235.004	15.938
	532	Divided			1.06782
zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	493	Subtracted	236.751	252.038	15.287
	580	Divided			1.06457
zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5]	2822		0.00001	0.00001	1
		Subtracted	0	0	0
zinc transporter 3 (znt-3). [swissprot;acc:q99726]	3049	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
zinc-finger protein zpr1 (zinc finger protein 259). [swissprot;acc:o75312]	2416		217.366	218.117	0.751
	2435	Divided			1.00346
zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543]	915	Subtracted	237.558	229.677	7.881
	960	Divided			1.03431
[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]	1518		213.259	209.524	1.01783
	1534	Subtracted			3.735
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	1507	Divided	213.274	209.5	1.01801
	1517	Subtracted			3.774
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]	1508	Divided			1.01801
	1518	Subtracted			3.774

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.