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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 3358 to 3407 of 29840 in total

Interaction Map  : High confidence

Rank	description	Value Type	Network Comparison Type	Filtered	red	green	network_comparison
210	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Squared	Divided	0	177.23	126.355	1.40264
	transcription factor-like protein morf4 (mortality factor 4) (cellular senescence-related protein 1) (sen1). [swissprot;acc:q9y690]	Measured			1053.33	887.413	1.18697
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]			1	4068.82	5082.21	1.24906
211	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Ranked	Subtracted		237.302	212.41	24.892
	ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]	Measured	Divided	0	2464	2076.5	1.18661
		Rooted			48.2208	42.3517	1.13858
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Squared	Subtracted	1	28994.2	17134.8	11859.4
	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]			0	668.421	962.098	293.677
	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Rooted		1	121.695	131.815	10.12
	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	Measured		0	2713.5	2864.68	151.18
	lamin b2. [swissprot;acc:q03252]	Rooted			17.4452	14.7595	2.6857
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Measured		1	4358.13	5811.49	1453.36
	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	Rooted	Divided		88.4361	77.5112	1.14095
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Squared		0	98.1677	70.141	1.39958
	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]			1	14668.3	19547	1.3326
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Ranked			285.684	252.234	1.13261
	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]			0	10367	9320.25	1.11231
	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]		Subtracted		12364.8	11207.9	1156.9
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Measured	Divided	1	4068.91	5082.27	1.24905
212	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]		Subtracted	0	1621.1	1771.04	149.94
	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	Rooted	Divided	1	88.4266	77.5047	1.14092
	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	Ranked			285.684	252.234	1.13261
	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	Squared	Subtracted	0	699.353	414.113	285.24
	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	Rooted			20.3469	17.7078	2.6391
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]			1	121.695	131.815	10.12
	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	Ranked		0	12394.7	11240.2	1154.5
	metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832]		Divided		18241.7	16405	1.11196
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Squared			98.1677	70.141	1.39958
	ns1-associated protein 1. [refseq;acc:nm_006372]	Ranked	Subtracted	1	237.302	212.41	24.892
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	Squared	Divided		14690.3	19560.2	1.3315
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]		Subtracted		28994.2	17134.8	11859.4
	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	Measured	Divided		4446.72	5553.79	1.24896
	ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966]			0	2464	2076.5	1.18661
		Rooted			48.2208	42.3517	1.13858
	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	Measured	Subtracted	1	6416.68	7865.15	1448.47
213	arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681]		Divided	0	1162.21	1376.88	1.18471
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Rooted		1	105.205	92.2415	1.14054
	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Squared	Subtracted		28994.2	17134.8	11859.4
	camp-dependent protein kinase, gamma-catalytic subunit (ec 2.7.1.37) (pka c-gamma). [swissprot;acc:p22612]			0	3862.64	4136.72	274.08
	carboxypeptidase b precursor. [refseq;acc:nm_020361]	Measured		1	7711.38	6265.8	1445.58
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	Ranked		0	11867.6	13019	1151.4
	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	Rooted			20.3458	17.7104	2.6354
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Ranked		1	237.302	212.41	24.892
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Rooted			121.695	131.815	10.12
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	Squared	Divided	0	98.1677	70.141	1.39958
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Rooted			126.359	111.067	1.13768
	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Measured		1	4446.72	5553.79	1.24896
	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	Ranked			210.693	186.95	1.127
	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]			0	9379.47	8436.39	1.11179
	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	Measured	Subtracted		1217.96	1367.88	149.92

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.