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

Results: HTML CSV LaTeX

Showing element 1 to 16 of 16 in total

Interaction Map  : High confidence
Rank  : 22

Value Type	Filtered	green	red	description	Network Comparison Type	network_comparison
Measured	0	0.00001	60	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	Divided	6000000
		30022.4	31122	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	Subtracted	1099.6
	1	1865.5	677.5	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Divided	2.75351
		18263	23693.7	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Subtracted	5430.7
Ranked	0	11965.7	5510.5	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]		6455.2
		12479	20989	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Divided	1.68195
	1	245.247	185.678	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]		1.32082
		253	322	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Subtracted	69
Squared	0	0.0532544	0.000236686	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	Divided	225
		204096	192242	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488]	Subtracted	11854
	1	823.69	108.641	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Divided	7.58176
		129762	219048	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Subtracted	89286
Rooted	0	12.49	3.16228	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	Divided	3.94968
		13.5647	24.454	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	Subtracted	10.8893
	1	24.2915	40.3357	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	Divided	1.66049
		133.176	153.578	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Subtracted	20.402

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.