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.

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

Results: HTML CSV LaTeX

Showing element 151 to 200 of 14920 in total

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

description	Rank	Value Type	red	network_comparison	green
26s proteasome non-atpase regulatory subunit 3 (26s proteasome regulatory subunit s3) (proteasome subunit p58). [swissprot;acc:o43242]	1964	Rooted	62.1627	1.02819	63.9151
	2440	Ranked	217.645	1.00336	218.376
26s proteasome non-atpase regulatory subunit 4 (26s proteasome regulatory subunit s5a) (rpn10) (multiubiquitin chain binding protein) (antisecretory factor-1) (af) (asf). [swissprot;acc:p55036]	1432		220.987	1.02028	225.468
	1439	Squared	23913	1.11896	26757.8
	1979	Measured	5475.74	1.05939	5800.97
	2482	Rooted	60.4511	1.0115	61.1463
26s proteasome non-atpase regulatory subunit 6 (26s proteasome regulatory subunit s10) (p42a) (proteasome regulatory particle subunit p44s10). [swissprot;acc:q15008]	1396	Squared	27408.7	1.12181	30747.3
	1472	Measured	5984.47	1.07535	6435.42
	1915	Rooted	63.054	1.02883	64.872
	2432	Ranked	215.807	1.00347	216.556
26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [swissprot;acc:p51665]	1554	Squared	26642.1	1.11185	29622.1
	1571	Measured	5851.64	1.07208	6273.4
	2013	Rooted	62.3398	1.02737	64.0462
	2355	Ranked	217.232	1.00428	218.162
26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [swissprot;acc:p48556]	1536	Measured	5916.05	1.07344	6350.53
	1691	Squared	27060.6	1.10555	29916.8
	1861	Rooted	62.7784	1.02965	64.64
	2525	Ranked	215.835	1.00234	216.341
26s proteasome non-atpase regulatory subunit 9 (26s proteasome regulatory subunit p27). [swissprot;acc:o00233]	1517	Measured	5996.14	1.07393	6439.46
	1628	Squared	27762.4	1.10811	30763.9
	1831	Rooted	63.0811	1.03036	64.9964
	2620	Ranked	215.615	1.00137	215.91
26s proteasome-associated pad1 homolog. [refseq;acc:nm_005805]	1562	Squared	26174.3	1.11172	29098.4
	1643	Measured	5782.92	1.06977	6186.39
	2103	Rooted	61.9958	1.02489	63.5389
	2150	Ranked	217.871	1.00686	219.366
27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	810		212.386	1.04425	221.785
	2204	Rooted	62.412	1.02189	61.0748
	2681	Squared	24123.5	1.02305	24679.6
	2720	Measured	5603.24	1.00351	5583.64
28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	325	Ranked	243.944	1.09941	268.195
	383	Rooted	49.8325	1.1023	45.2077
	1966	Squared	12300.5	1.09279	13441.9
	2153	Measured	3560.63	1.05302	3381.34
28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	1409	Squared	21512.7	1.121	24115.7
	1955	Measured	5195.3	1.0607	5510.67
	2212	Ranked	224.411	1.00643	225.854
	2305	Rooted	59.0186	1.01926	60.1552
28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	23	Ranked	58	1.31818	44
	35	Squared	106226	1.80879	192141
	115	Measured	21185	1.34491	28492
	173	Rooted	145.551	1.1597	168.796
28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2]	828	Squared	24211.7	1.16112	28112.8
	835	Measured	5623.18	1.10592	6218.77
	1149	Rooted	61.5672	1.04831	64.5415
	1659	Ranked	217.925	1.01443	214.826
28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]	2071	Measured	6437.24	1.05592	6797.24
	2082	Rooted	64.5014	1.02599	66.1778
	2449	Squared	33026.7	1.06072	35032
	2675	Ranked	214.893	1.001	215.108

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.