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 1030 to 1079 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	Network Comparison Type	red	green	network_comparison
129	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	Squared	Divided	178263	118639	1.50257
	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	Measured	Subtracted	15274.9	13346.9	1928
	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Squared		71062.4	95488.9	24426.5
130	44050 protein. [refseq;acc:nm_178832]		Divided	148058	99628.4	1.4861
	calsyntenin-1 precursor. [swissprot;acc:o94985]		Subtracted	71062.4	95488.9	24426.5
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Measured	Divided	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
	p66 alpha. [refseq;acc:nm_017660]	Measured	Subtracted	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
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]		Divided	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
131	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	Ranked		242.718	276.018	33.3
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Measured	Divided	2234.73	2978.57	1.33285
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Rooted		55.1113	67.5537	1.22577
	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		148058	99628.4	1.4861
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Rooted	Subtracted	144.606	157.824	13.218
	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	Divided	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
132	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	Squared	Divided	36359.2	24466.8	1.48606
	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Ranked	Subtracted	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
	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Squared	Subtracted	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
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Ranked	Divided	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
133	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Rooted		144.606	157.824	13.218
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	Measured		12798.9	10887.2	1911.7
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Ranked		226.887	194.72	32.167
	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Measured	Divided	23421.5	17580.4	1.33225
	gbp protein isoform a. [refseq;acc:nm_017870]	Squared		1182.25	1726.55	1.46039
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Rooted		45.4558	55.5995	1.22316
	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	Squared	Subtracted	71062.2	95488.6	24426.4
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Ranked	Divided	350	290	1.2069
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	Rooted		44.849	54.7964	1.2218
	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	Measured	Subtracted	12796.8	10886	1910.8
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]		Divided	21785.2	16426.1	1.32626
	gk001 protein. [refseq;acc:nm_020198]	Squared	Subtracted	71062.2	95488.6	24426.4
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Ranked		226.884	194.79	32.094
	p66 alpha. [refseq;acc:nm_017660]	Squared	Divided	81888.8	56306.5	1.45434
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	Rooted	Subtracted	54.8203	67.934	13.1137
135	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		Divided	54.935	66.6101	1.21253
	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Measured		21785.2	16426.1	1.32626
	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Squared	Subtracted	71033.4	95440.2	24406.8
	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked	Divided	350	290	1.2069
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]		Subtracted	263.215	231.407	31.808
	transcription factor jun-b. [swissprot;acc:p17275]	Measured		5579.18	7488.4	1909.22
	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	Squared	Divided	81888.8	56306.5	1.45434

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.