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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 2775 to 2824 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Rank	Hugo	Value Type	Network Comparison Type	red	green	network_comparison
atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [swissprot;acc:p53396]	2683	ACLY	Ranked	Subtracted	213.792	213.619	0.173
	2689			Divided			1.00081
atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]	1147	CLPX	Squared		20397.1	23249.1	1.13982
	1345			Subtracted			2852
	1574		Measured	Divided	5106.13	5472.96	1.07184
	1827		Ranked	Subtracted	222.819	225.228	2.409
	1871			Divided			1.01081
	1875		Measured	Subtracted	5106.13	5472.96	366.83
	2281		Rooted	Divided	59.0309	60.2133	1.02003
	2335			Subtracted			1.1824
atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]	1333	no value	Squared		26883.9	29760.1	2876.2
	1646			Divided			1.10699
	1838		Measured		5739.49	6108.72	1.06433
	1869			Subtracted			369.23
	2032		Rooted	Divided	61.2194	62.8837	1.02719
	2047			Subtracted			1.6643
	2726		Ranked		221.001	220.927	0.074
	2727			Divided			1.00033
atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010]	1334	XRCC5	Squared	Subtracted	26883.9	29760.1	2876.2
	1647			Divided			1.10699
	1839		Measured		5739.49	6108.72	1.06433
	1870			Subtracted			369.23
	2033		Rooted	Divided	61.2194	62.8837	1.02719
	2048			Subtracted			1.6643
	2727		Ranked		221.001	220.927	0.074
	2728			Divided			1.00033
atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762]	601	RECQL5	Squared	Subtracted	28767.1	33317.5	4550.4
	909			Divided			1.15818
	1490		Measured	Subtracted	6025.86	6464.16	438.3
	1552			Divided			1.07274
	1688		Ranked	Subtracted	216.079	219.024	2.945
	1703			Divided			1.01363
	2289		Rooted		63.0728	64.3156	1.0197
	2304			Subtracted			1.2428
atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1]	367	DDX18		Divided	49.0882	54.2027	1.10419
	458		Ranked	Subtracted	251.653	235.506	16.147
	463		Measured	Divided	3720.18	4264.46	1.1463
	526		Rooted	Subtracted	49.0882	54.2027	5.1145
	529		Ranked	Divided	251.653	235.506	1.06856
	985		Measured	Subtracted	3720.18	4264.46	544.28
	1347		Squared	Divided	14123.5	15905.2	1.12615
	2193			Subtracted			1781.7
atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	208	DDX24	Rooted	Divided	46.901	53.624	1.14334
	276		Ranked	Subtracted	258.437	235.183	23.254
	326		Measured	Divided	3432.96	4081.21	1.18883
	328		Ranked		258.437	235.183	1.09888
	360		Rooted	Subtracted	46.901	53.624	6.723
	749		Measured		3432.96	4081.21	648.25
	1229		Squared	Divided	12847.5	14588.5	1.13551
	2210			Subtracted			1741

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
- Hugo is the HGNC identifier if it exists
- 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.