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	Interaction Map	Filtered	Network Comparison Type	network_comparison	red	green

Results: HTML CSV LaTeX

Showing element 101 to 150 of 16578 in total

Value Type  : Measured
Filtered  : 1

description	Rank	Interaction Map	Network Comparison Type	network_comparison	red	green
26s protease regulatory subunit 4 (p26s4). [swissprot;acc:q03527]	1677	Low confidence	Subtracted	266.11	8156.56	8422.67
	1881		Divided	1.03263
26s protease regulatory subunit 6a (tat-binding protein 1) (tbp-1) (proteasome subunit p50). [swissprot;acc:p17980]	1511	High confidence	Subtracted	435.57	5926.76	6362.33
	1527		Divided	1.07349
	1841	Low confidence	Subtracted	261.01	8111.49	8372.5
	2003		Divided	1.03218
26s protease regulatory subunit 6b (mip224) (mb67 interacting protein) (tat-binding protein-7) (tbp-7). [swissprot;acc:p43686]	1060		Subtracted	299.14	8257.44	8556.58
	1203		Divided	1.03623
	1567	High confidence		1.07226	5822.25	6242.94
	1628		Subtracted	420.69
26s protease regulatory subunit 7 (mss1 protein). [swissprot;acc:p35998]	877	Low confidence		318.16	8385.76	8703.92
	1024		Divided	1.03794
	1539	High confidence		1.07322	5783.97	6207.5
	1622		Subtracted	423.53
26s protease regulatory subunit 8 (proteasome subunit p45) (thyroid hormone receptor interacting protein 1) (trip1) (msug1 protein) (tat-binding protein homolog 10) (tbp10) (p45/sug). [swissprot;acc:p47210]	2602			83.65	9150.44	9234.09
	2651		Divided	1.00914
	2944	Low confidence	Subtracted	225.57	8088.94	8314.51
	3044		Divided	1.02789
26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]	1577	High confidence		1.07181	5923.66	6349.04
	1599		Subtracted	425.38
	2526	Low confidence		238.39	8088.12	8326.51
	2711		Divided	1.02947
26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [swissprot;acc:q99460]	1862	High confidence	Subtracted	369.48	5826	6195.48
	1883		Divided	1.06342
	2447	Low confidence		1.03046	7825.14	8063.51
	2527		Subtracted	238.37
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	1609	High confidence	Divided	1.07134	5826.74	6242.44
	1646		Subtracted	415.7
	1884	Low confidence		259.6	8137.96	8397.56
	2056		Divided	1.0319
26s proteasome non-atpase regulatory subunit 11 (26s proteasome regulatory subunit s9) (26s proteasome regulatory subunit p44.5). [swissprot;acc:o00231]	744		Subtracted	334.41	8393.58	8727.99
	889		Divided	1.03984
	1592	High confidence		1.07153	5853.1	6271.79
	1634		Subtracted	418.69
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]	933	Low confidence		312.52	8358.82	8671.34
	1073		Divided	1.03739
	1579	High confidence		1.07179	5842.44	6261.87
	1633		Subtracted	419.43
26s proteasome non-atpase regulatory subunit 13 (26s proteasome regulatory subunit s11) (26s proteasome regulatory subunit p40.5). [swissprot;acc:q9unm6]	1585		Divided	1.07166	5858.48	6278.32
	1632		Subtracted	419.84
	1795	Low confidence		262.04	8126.5	8388.54
	1982		Divided	1.03225
26s proteasome non-atpase regulatory subunit 2 (26s proteasome regulatory subunit s2) (26s proteasome subunit p97) (tumor necrosis factor type 1 receptor associated protein 2) (55.11 protein). [swissprot;acc:q13200]	986	High confidence	Subtracted	543.94	6436.19	6980.13
	1241		Divided	1.08451
	1853	Low confidence	Subtracted	260.44	8260.81	8521.25
	2168		Divided	1.03153
26s proteasome non-atpase regulatory subunit 3 (26s proteasome regulatory subunit s3) (proteasome subunit p58). [swissprot;acc:o43242]	1546	High confidence		1.07303	5819.39	6244.37
	1602		Subtracted	424.98
	1910	Low confidence		258.71	8149.27	8407.98
	2101		Divided	1.03175

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.