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

Results: HTML CSV LaTeX

Showing element 551 to 600 of 33156 in total

Filtered  : 1
Network Comparison Type  : Divided

description	Rank	Value Type	Interaction Map	green	red	network_comparison
40s ribosomal protein s11. [swissprot;acc:p04643]	1873	Measured	High confidence	3402.09	3618.46	1.0636
	1939	Squared	Low confidence	39527.9	41135.5	1.04067
	2016		High confidence	13514	12389	1.09081
	3606	Ranked	Low confidence	210.891	207.913	1.01432
	4707	Measured		7472.14	7369.62	1.01391
	4898	Rooted		69.4847	68.7371	1.01088
40s ribosomal protein s12. [swissprot;acc:p25398]	3133	Squared		42497.6	43974.9	1.03476
	3276	Measured		7995.94	7785.76	1.027
	3859	Rooted		72.9222	70.9166	1.02828
	4261	Ranked		201.631	203.546	1.0095
40s ribosomal protein s13. [swissprot;acc:q02546]	776	Squared	High confidence	25607.9	21976	1.16527
	1498	Measured		5818.7	5414.98	1.07456
	1722	Ranked		223.813	220.899	1.01319
	2348	Rooted		61.6019	60.5137	1.01798
	2851	Measured	Low confidence	8262.44	8031.31	1.02878
	3405	Rooted		74.2382	72.0347	1.03059
	3619	Squared		44427.7	45834.3	1.03166
	3777	Ranked		199.227	201.886	1.01335
40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	386		High confidence	264.11	242.238	1.09029
	530	Rooted		46.6413	50.6537	1.08603
	1823	Squared		14424.1	13145.4	1.09727
	2030		Low confidence	40034.4	41640.7	1.04012
	2436	Measured	High confidence	3584.47	3708.67	1.03465
	4334		Low confidence	7571.79	7425.75	1.01967
	4717	Ranked		209.433	208.268	1.00559
	4747	Rooted		70.0583	68.8727	1.01721
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	304	Ranked	High confidence	266.986	242.339	1.1017
	376	Rooted		45.5688	50.2554	1.10285
	1989	Squared		13523.5	12388.6	1.09161
	2067	Measured		3411.18	3602.75	1.05616
	2567	Squared	Low confidence	40220.1	41752.3	1.0381
	4250	Ranked		209.342	207.351	1.0096
	4587	Measured		7576.71	7449.17	1.01712
	4822	Rooted		70.1036	69.1027	1.01448
40s ribosomal protein s15a. [swissprot;acc:p39027]	292	Ranked	High confidence	266.414	241.411	1.10357
	366	Rooted		45.7763	50.5463	1.1042
	1303	Squared	Low confidence	40292.9	42102.8	1.04492
	2008	Measured	High confidence	3435.61	3637.47	1.05876
	2015	Squared		13600.6	12467.2	1.09091
	3989	Ranked	Low confidence	209.395	206.934	1.01189
	4697	Measured		7588.58	7480.2	1.01449
	4864	Rooted		70.1434	69.2629	1.01271
40s ribosomal protein s16. [swissprot;acc:p17008]	391	Ranked	High confidence	263.62	241.828	1.09011
	534	Rooted		46.8198	50.8036	1.08509
	1784	Squared		14564.4	13244.1	1.09969
	2448	Measured		3611.05	3730.53	1.03309
	2770	Squared	Low confidence	40856.6	42362	1.03685
	4134	Measured		7653.76	7496.15	1.02103
	4676	Rooted		70.3804	69.0873	1.01872
	4832	Ranked		209.034	208.276	1.00364

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.