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 2123 to 2172 of 29840 in total

Interaction Map  : High confidence

Rank	description	Value Type	Network Comparison Type	Filtered	red	green	network_comparison
133	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Rooted	Divided	1	45.4558	55.5995	1.22316
	testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]	Measured	Subtracted	0	3036.85	2784.59	252.26
	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	Rooted	Divided		27.4578	22.8323	1.20259
	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	Squared	Subtracted	1	71062.2	95488.6	24426.4
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Ranked	Divided		350	290	1.2069
	udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855]	Rooted	Subtracted	0	32.4121	28.377	4.0351
134	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	Squared			3438.01	4339.96	901.95
	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]		Divided		11625.2	6483.52	1.79304
	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	Rooted	Subtracted		23.9003	19.8655	4.0348
	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]	Ranked	Divided		12314.9	10489.3	1.17404
	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]			1	350	290	1.2069
	dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9]	Rooted		0	10	12	1.2
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]			1	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
	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	Measured	Divided	0	260.986	346.751	1.32862
	p66 alpha. [refseq;acc:nm_017660]	Squared		1	81888.8	56306.5	1.45434
	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Ranked	Subtracted	0	12157.6	13890.3	1732.7
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	Rooted		1	54.8203	67.934	13.1137
	testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]	Measured		0	3036.29	2784.08	252.21
135	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Rooted	Divided	1	54.935	66.6101	1.21253
	60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268]	Measured	Subtracted	0	728.65	476.619	252.031
	apg3p; pc3-96 protein. [refseq;acc:nm_022488]		Divided	1	21785.2	16426.1	1.32626
	bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132]	Ranked	Subtracted	0	8871.11	10603.2	1732.09
	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Squared		1	71033.4	95440.2	24406.8
	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]	Ranked	Divided	0	12314.9	10489.3	1.17404
	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]			1	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
	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Rooted		0	26.8649	22.8761	3.9888
	rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427]	Measured	Divided		814.485	613.614	1.32736
	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	Squared			21101.4	11769.5	1.79289
	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	Rooted			42.8135	51.3517	1.19943
	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	Squared	Subtracted		1592.06	2488.07	896.01
	transcription factor jun-b. [swissprot;acc:p17275]	Measured		1	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
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Rooted	Subtracted		49.2923	62.3969	13.1046
136	26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]	Squared		0	6747.71	5878.56	869.15
	adiponectin receptor 2. [refseq;acc:nm_024551]	Rooted	Divided	1	41.8357	50.6469	1.21061
	calsyntenin-3 precursor. [swissprot;acc:q9bqt9]	Squared	Subtracted		71030.1	95434.8	24404.7
	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	Measured			12787.6	10880.5	1907.1
	cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2]	Ranked	Divided	0	12335.3	10506.8	1.17403
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]			1	350	290	1.2069
	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]	Rooted		0	23.9877	20.1222	1.1921
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Ranked	Subtracted	1	263.215	231.407	31.808
	glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434]	Measured		0	903.767	1152.06	248.293
	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]		Divided	1	3620.77	4763.34	1.31556
	polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393]	Ranked	Subtracted	0	12759.4	11028.8	1730.6
		Rooted			14.7363	18.7165	3.9802

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.