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

Results: HTML CSV LaTeX

Showing element 601 to 650 of 19268 in total

Value Type  : Ranked

Rank	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison
76	db83 protein. [swissprot;acc:p57088]	Divided	High confidence	1	288	362	1.25694
	diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910]	Subtracted	Low confidence		226.981	208.077	18.904
	dok-like protein. [refseq;acc:nm_024872]			0	12678.5	15320	2641.5
	enigma protein; lim domain protein. [refseq;acc:nm_005451]		High confidence		14476.2	17069.5	2593.3
	nipsnap1 protein. [swissprot;acc:q9bpw8]	Divided	Low confidence	1	249.584	226.86	1.10017
	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]		High confidence	0	3474	2695	1.28905
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]		Low confidence		9960.27	12345.3	1.23945
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Subtracted	High confidence	1	254.693	202.668	52.025
77	adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813]	Divided	Low confidence	0	11252.3	13871.6	1.23278
	diacylglycerol kinase, delta (ec 2.7.1.107) (diglyceride kinase) (dgk-delta) (dag kinase delta) (130 kda diacylglycerol kinase) (fragment). [swissprot;acc:q16760]	Subtracted		1	226.981	208.077	18.904
	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]			0	14548.5	11915.2	2633.3
	nanos (fragment). [sptrembl;acc:q8wy41]		High confidence		8782	11350	2568
	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	Divided	Low confidence	1	195.851	215.424	1.09994
	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]		High confidence	0	8821.32	11366.5	1.28853
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]			1	254.692	202.668	1.2567
		Subtracted					52.024
78	adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813]		Low confidence	0	11252.3	13871.6	2619.3
	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]			1	233.922	215.309	18.613
	e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]		High confidence	0	7853.67	10406.3	2552.63
	histone-lysine n-methyltransferase, h3 lysine-79 specific (ec 2.1.1.43) (histone h3-k79 methyltransferase) (h3-k79-hmtase) (dot1-like protein). [swissprot;acc:q8tek3]	Divided	Low confidence		10751	13236	1.23114
	malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298]			1	211	231.635	1.0978
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]		High confidence	0	7584.72	9706.12	1.27969
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Subtracted		1	254.691	202.668	52.023
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Divided			254.693		1.2567
79	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]		Low confidence		229.144	208.803	1.09742
	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Subtracted			247.334	228.84	18.494
	latrophilin 2; lectomedin-1; latrophilin homolog 2 (cow). [refseq;acc:nm_012302]			0	9856	12392	2536
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Divided			13825.5	17020.5	1.23109
	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]		High confidence		9465.55	12106.5	1.27901
	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	Subtracted			8821.32	11366.5	2545.18
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Divided		1	254.693	202.668	1.2567
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Subtracted			254.614	202.646	51.968
80	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Divided		0	9102.34	11617.9	1.27636
		Subtracted					2515.56
	l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338]		Low confidence		18586.3	16094.8	2491.5
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Divided			13825.5	17020.5	1.23109
	rad50-interacting protein 1. [refseq;acc:nm_021930]			1	221.194	202.005	1.09499
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	Subtracted	High confidence		294.053	242.562	51.491
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]		Low confidence		226.338	207.874	18.464
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Divided	High confidence		254.691	202.668	1.25669
81	collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400]	Subtracted		0	7704.7	10174.1	2469.4
	histone-lysine n-methyltransferase, h3 lysine-79 specific (ec 2.1.1.43) (histone h3-k79 methyltransferase) (h3-k79-hmtase) (dot1-like protein). [swissprot;acc:q8tek3]		Low confidence		10751	13236	2485
	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]		High confidence	1	252.371	202.016	50.355
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Divided	Low confidence	0	13825.5	17020.5	1.23109
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Subtracted		1	247.087	228.693	18.394
	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	Divided	High confidence	0	14463	11356	1.2736
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]		Low confidence	1	227.623	208.281	1.09286
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]		High confidence		254.614	202.646	1.25645
82	diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910]		Low confidence		226.981	208.077	1.09085
	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]		High confidence	0	7706.5	6058	1.27212

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.