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

Results: HTML CSV LaTeX

Showing element 951 to 1000 of 38536 in total

Network Comparison Type  : Divided
Filtered  : 1

description	Rank	Value Type	Interaction Map	green	red	network_comparison
43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702]	2965	Rooted	Low confidence	74.2064	71.8908	1.03221
	3491	Measured		8261.9	8052.19	1.02604
44050 protein. [refseq;acc:nm_178832]	130	Squared	High confidence	99628.4	148058	1.4861
	356		Low confidence	47418.8	50918.6	1.07381
	376	Measured	High confidence	14889.2	17385.9	1.16769
	1193	Rooted		103.501	108.34	1.04675
	2506	Ranked		151.009	151.386	1.0025
	3824		Low confidence	196.978	199.574	1.01318
	4091	Rooted		75.3283	73.4011	1.02626
	4703	Measured		8507.06	8386.63	1.01436
45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]	375	Squared	High confidence	56777.1	45987	1.23463
	587	Measured	Low confidence	8360.72	7995.61	1.04566
	932	Rooted		75.4281	72.543	1.03977
	972	Measured	High confidence	8570.11	7813.48	1.09684
	1733	Rooted		72.4922	70.2391	1.03208
	2147	Ranked		207.862	206.442	1.00688
	2500		Low confidence	195.198	198.748	1.01819
	4725	Squared		43864.2	44473.6	1.01389
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	600		High confidence	40434.5	34129.6	1.18473
	691	Measured		7747.63	6920.69	1.11949
	755	Rooted		71.4637	66.9737	1.06704
	862	Squared	Low confidence	44678.6	46909	1.04992
	879	Ranked	High confidence	203.954	212.002	1.03946
	2381		Low confidence	197.73	201.395	1.01854
	2756	Rooted		74.8338	72.454	1.03285
	3556	Measured		8348.29	8139.14	1.0257
5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]	598	Squared	High confidence	40434.5	34129.6	1.18473
	689	Measured		7747.63	6920.69	1.11949
	753	Rooted		71.4637	66.9737	1.06704
	877	Ranked		203.954	212.002	1.03946
	883	Squared	Low confidence	44665.5	46871	1.04938
	2351	Ranked		197.731	201.408	1.0186
	2724	Rooted		74.8339	72.4451	1.03297
	3509	Measured		8347.85	8136.52	1.02597
5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]	597	Squared	High confidence	40434.2	34129.4	1.18473
	688	Measured		7747.6	6920.67	1.11949
	752	Rooted		71.4636	66.9736	1.06704
	876	Ranked		203.954	212.002	1.03946
	1019	Squared	Low confidence	44898.8	47048.9	1.04789
	1683	Ranked		196.78	200.836	1.02061
	2109	Rooted		75.174	72.6504	1.03474
	3045	Measured		8396.61	8168.9	1.02788
5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646]	595	Squared	High confidence	40434.8	34129.7	1.18474
	687	Measured		7747.65	6920.71	1.11949
	751	Rooted		71.4638	66.9738	1.06704
	875	Ranked		203.954	212.002	1.03946
	1008	Squared	Low confidence	44897.7	47053.2	1.04801
	1681	Ranked		196.771	200.826	1.02061
	2116	Rooted		75.1754	72.6526	1.03472
	3059	Measured		8396.61	8169.23	1.02783

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.