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.

Navigation/Query Panel:
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 2063 to 2112 of 29840 in total

Interaction Map  : High confidence

Rank	description	Value Type	Network Comparison Type	Filtered	red	green	network_comparison
129	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Squared	Subtracted	1	71062.4	95488.9	24426.5
	udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310]	Rooted		0	32.4121	28.377	4.0351
130	44050 protein. [refseq;acc:nm_178832]	Squared	Divided	1	148058	99628.4	1.4861
	60s ribosomal protein l12. [swissprot;acc:p30050]		Subtracted	0	3686.65	4639.46	952.81
	calsyntenin-1 precursor. [swissprot;acc:o94985]			1	71062.4	95488.9	24426.5
	chromodomain y-like protein 2. [refseq;acc:nm_152342]	Measured		0	3053.31	2799.81	253.5
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Squared	Divided		21165.1	38499.2	1.81899
	enigma protein; lim domain protein. [refseq;acc:nm_005451]	Ranked			14476.2	17069.5	1.17914
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Measured		1	2234.68	2978.53	1.33287
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Rooted			55.1026	67.5701	1.22626
	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	Measured		0	42	56	1.33333
	p66 alpha. [refseq;acc:nm_017660]		Subtracted	1	12839	10911.1	1927.9
	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	Ranked			242.735	276.059	33.324
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]			0	14922.7	13174.5	1748.2
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]		Divided	1	94	114	1.21277
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Rooted	Subtracted		144.606	157.824	13.218
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]		Divided	0	12.7347	10.4997	1.21286
	udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133]		Subtracted		32.4121	28.377	4.0351
131	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Squared			101.05	1034.13	933.08
	60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268]	Rooted	Divided		19.3128	16.0484	1.20341
	dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692]	Ranked			8375.43	9873.58	1.17887
	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]		Subtracted	1	242.718	276.018	33.3
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Measured	Divided		2234.73	2978.57	1.33285
	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Rooted	Subtracted	0	32.4121	28.377	4.0351
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]		Divided	1	55.1113	67.5537	1.22577
	integral membrane protein cii-3b. [sptrembl;acc:o75609]	Ranked	Subtracted	0	14951.6	13204.2	1747.4
	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	Squared	Divided	1	148058	99628.4	1.4861
	protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031]	Measured	Subtracted	0	4912.01	4658.69	253.32
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Rooted		1	144.606	157.824	13.218
	serpin b11. [swissprot;acc:q96p15]	Measured	Divided	0	42	56	1.33333
	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]	Ranked		1	294.053	242.562	1.21228
	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	Squared	Subtracted		71062.4	95488.9	24426.5
	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	Measured			12839	10911.1	1927.9
	vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670]	Squared	Divided	0	451.156	817.981	1.81308
132	arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]		Subtracted		5671.94	6590.82	918.88
	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]		Divided	1	36359.2	24466.8	1.48606
	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	Rooted		0	23.9003	19.8655	1.20311
	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]	Measured			42	56	1.33333
	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Ranked	Subtracted	1	229.406	196.695	32.711
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Measured	Divided		2236.61	2980.35	1.33253
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Rooted			44.963	55.0576	1.22451
	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]	Squared		0	1.75053	0.969467	1.80566
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Ranked	Subtracted		10883	12622.8	1739.8
	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Squared		1	71062.2	95488.6	24426.4
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Rooted			144.606	157.824	13.218
	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]	Ranked	Divided	0	19048	22389	1.1754
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]			1	350	290	1.2069
	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	Measured	Subtracted		12839	10911.1	1927.9
	udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]	Rooted		0	32.4121	28.377	4.0351
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Measured			1949.36	2202	252.64

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.