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 5858 to 5907 of 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence

description	Rank	Network Comparison Type	Filtered	red	green	network_comparison
serpin b12. [swissprot;acc:q96p63]	44	Divided	0	14604.2	21138.6	1.44743
	2401	Subtracted	1	218.2	218.984	0.784
	2413	Divided				1.00359
seryl-trna synthetase (ec 6.1.1.11) (serine--trna ligase) (serrs). [swissprot;acc:p49591]	2118			214.632	213.14	1.007
	2134	Subtracted				1.492
seryl-trna synthetase, mitochondrial precursor (ec 6.1.1.11) (serine--trna ligase) (serrsmt). [swissprot;acc:q9np81]	2117	Divided				1.007
	2133	Subtracted				1.492
sestrin 1 (p53-regulated protein pa26). [swissprot;acc:q9y6p5]	1258			218.368	213.22	5.148
	1290	Divided				1.02414
sestrin 2 (hi95). [swissprot;acc:p58004]	1247	Subtracted			213.219	5.149
	1279	Divided				1.02415
sestrin 3. [swissprot;acc:p58005]	1246	Subtracted				5.149
	1278	Divided				1.02415
set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	363	Subtracted		233.539	253.197	19.658
	417	Divided				1.08417
set protein (hla-dr associated protein ii) (phapii) (phosphatase 2a inhibitor i2pp2a). [swissprot;acc:q01105]	3039			0.00001	0.00001	1
		Subtracted		0	0	0
seven in absentia homolog 1. [refseq;acc:nm_003031]	392	Divided	0	9854.67	10201.4	1.03518
	405	Subtracted				346.73
	2186		1	223.608	225.005	1.397
	2234	Divided				1.00625
seven in absentia homolog 2. [refseq;acc:nm_005067]	2225	Subtracted		223.546	224.869	1.323
	2256	Divided				1.00592
sex comb on midleg homolog 1. [refseq;acc:nm_012236]	3217			0.00001	0.00001	1
		Subtracted		0	0	0
sex comb on midleg-like 2; sex comb on midleg like 2. [refseq;acc:nm_006089]	3120	Divided		0.00001	0.00001	1
		Subtracted		0	0	0
sfrs protein kinase 1; sr protein kinase 1. [refseq;acc:nm_003137]	1670			216.899	213.889	3.01
	1684	Divided				1.01407
sfrs protein kinase 2 isoform b. [refseq;acc:nm_182691]	1668	Subtracted				3.01
	1682	Divided				1.01407
sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	491	Subtracted	0	13692.7	13718.2	25.5
	497	Divided				1.00186
	924	Subtracted	1	238.725	231.059	7.666
	1004	Divided				1.03318
sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	228			226.411	202.088	1.12036
	231	Subtracted				24.323
sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503]	264		0	12783	13698	915
	301	Divided				1.07158
	2794		1	0.00001	0.00001	1
		Subtracted		0	0	0
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]	104		0	18809.5	16764.2	2045.3
	191	Divided				1.122
	2867		1	0.00001	0.00001	1
		Subtracted		0	0	0
sh3 domain-binding glutamic acid-rich protein (sh3bgr protein) (21- glutamic acid-rich protein) (21-garp). [swissprot;acc:p55822]	2030			218.79	216.981	1.809
	2050	Divided				1.00834
sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]	439	Subtracted	0	13933.5	14204.8	271.3
	455	Divided				1.01947
	2037	Subtracted	1	218.79	216.981	1.809

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.