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

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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 12912 in total

Interaction Map  : High confidence
Network Comparison Type  : Divided
Filtered  : 1

description	Rank	green	Value Type	red	network_comparison
15 kda selenoprotein precursor. [swissprot;acc:o60613]	1334	67.2624	Rooted	64.5959	1.04128
	1948	212.432	Ranked	214.522	1.00984
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428]	2855	0.00001	Measured	0.00001	1
			Ranked
			Squared
			Rooted
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]	1051	217.998	Ranked	211.449	1.03097
	2377	27574.1	Squared	25809.5	1.06837
	2521	6113.96	Measured	5964.17	1.02511
	2642	63.5847	Rooted	63.9773	1.00617
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83]	1393	6192.72	Measured	5743.36	1.07824
	1463	62.6331	Rooted	60.3015	1.03867
	1593	32473.8	Squared	29261.2	1.10979
	2007	222.969	Ranked	225.019	1.00919
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218]	1160	214.041		208.55	1.02633
	2426	28847.4	Squared	27135.1	1.0631
	2506	6362.25	Measured	6200.39	1.0261
	2700	65.1252	Rooted	65.3323	1.00318
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	1484	202.726	Ranked	198.927	1.0191
	1699	31699.9	Squared	28693.8	1.10476
	2451	6957.34	Measured	6737.15	1.03268
	2716	69.1987	Rooted	69.1013	1.00141
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953]	1389	213.875	Ranked	218.47	1.02148
	1579	64.1938	Rooted	61.9705	1.03588
	2288	6048.94	Measured	5783.76	1.04585
	2488	26643.2	Squared	25184.8	1.05791
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	107	5843.51	Measured	4266.04	1.36977
	135	66.6101	Rooted	54.935	1.21253
	183	198.011	Ranked	228.306	1.153
	290	20126.8	Squared	15734.4	1.27916
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	3079	0.00001	Measured	0.00001	1
			Ranked
			Squared
			Rooted
26s protease regulatory subunit 4 (p26s4). [swissprot;acc:q03527]	1521	6376.76	Measured	5938.56	1.07379
	1644	30104.4	Squared	27191.5	1.10713
	1870	64.7621	Rooted	62.901	1.02959
	2503	216.137	Ranked	215.581	1.00258
26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [swissprot;acc:p17980]	1496	30410	Squared	27295.8	1.11409
	1527	6362.33	Measured	5926.76	1.07349
	1916	64.4831	Rooted	62.679	1.02878
	2474	217.285	Ranked	216.64	1.00298
26s protease regulatory subunit 6b (mip224) (mb67 interacting protein) (tat-binding protein-7) (tbp-7). [swissprot;acc:p43686]	1489	29299.3	Squared	26277.3	1.115
	1567	6242.94	Measured	5822.25	1.07226
	2044	63.9055	Rooted	62.2342	1.02686
	2327	218.426	Ranked	217.413	1.00466
26s protease regulatory subunit 7 (mss1 protein). [swissprot;acc:p35998]	1481	29163.8	Squared	26142.6	1.11557
	1539	6207.5	Measured	5783.97	1.07322
	1979	63.6738	Rooted	61.9542	1.02776
	2395	219.014	Ranked	218.192	1.00377

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.