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

Results: HTML CSV LaTeX

Showing element 1930 to 1979 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	red	green	network_comparison
483	Ranked	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	237.109	254.667	1.07405
	Squared	solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183]	26867.3	32335.2	1.20352
	Rooted	histone h2b.d (h2b/d). [swissprot;acc:q99877]	50.6084	55.2961	1.09263
484	Measured	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]	9649.61	11053.5	1.14549
	Ranked	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	237.109	254.667	1.07405
	Squared	solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4]	26867.2	32335	1.20351
	Rooted	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	50.6084	55.2961	1.09263
485	Measured	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [swissprot;acc:q9nra0]	9649.61	11053.5	1.14549
	Ranked	60s ribosomal protein l18. [swissprot;acc:q07020]	237.109	254.667	1.07405
	Squared	solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2]	26867.2	32335	1.20351
	Rooted	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610]	50.6084	55.2961	1.09263
486	Measured	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	10908.6	12491.8	1.14513
	Ranked	mct-1 protein. [refseq;acc:nm_014060]	226.313	243.03	1.07387
	Squared	secretory carrier-associated membrane protein 2. [swissprot;acc:o15127]	26865.9	32332.9	1.20349
	Rooted	histone h2b.e (h2b/e). [swissprot;acc:q99879]	50.6084	55.2961	1.09263
487	Measured	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	5277.4	6042.88	1.14505
	Ranked	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	226.313	243.03	1.07387
	Squared	secretory carrier-associated membrane protein 3. [swissprot;acc:o14828]	26865.9	32332.9	1.20349
	Rooted	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]	50.0015	54.627	1.09251
488	Measured	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	10872.4	12447	1.14483
	Ranked	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	225.026	209.798	1.07258
	Squared	secretory carrier-associated membrane protein 1. [swissprot;acc:o15126]	26866.1	32333.2	1.20349
	Rooted	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	50.4315	46.1703	1.09229
489	Measured	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	5281.11	6044.61	1.14457
	Ranked	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	231.276	215.627	1.07257
	Squared	phosphatidate cytidylyltransferase 2 (ec 2.7.7.41) (cdp-diglyceride synthetase 2) (cdp-diglyceride pyrophosphorylase 2) (cdp- diacylglycerol synthase 2) (cds 2) (ctp:phosphatidate cytidylyltransferase 2) (cdp-dag synthase 2) (cdp-dg synthetase 2). [swissprot;acc:o95674]	26859	32321.2	1.20337
	Rooted	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	50.5505	46.2797	1.09228
490	Measured	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	15274.9	13346.9	1.14445
	Ranked	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	220.183	236.015	1.0719
	Squared	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	5301.97	6377.93	1.20294
	Rooted	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	50.5505	46.2797	1.09228
491	Measured	neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117]	5980.15	6843.48	1.14437
	Ranked	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	251.83	234.951	1.07184
	Squared	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	5302.25	6378.24	1.20293
	Rooted	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	55.1759	60.2621	1.09218
492	Measured	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	5979.94	6842.76	1.14429
	Ranked	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	220.171	235.979	1.0718
	Squared	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	5313	6389.9	1.20269
	Rooted	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	55.1759	60.2621	1.09218
493	Measured	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]	5979.95	6842.78	1.14429
	Ranked	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]	220.172	235.98	1.0718
	Squared	serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549]	28408.7	34148.5	1.20204
	Rooted	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	55.1759	60.2621	1.09218
494	Measured	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]	5979.93	6842.72	1.14428
	Ranked	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	220.172	235.98	1.0718
	Squared	electron transfer flavoprotein alpha-subunit, mitochondrial precursor (alpha-etf). [swissprot;acc:p13804]	31583	37925.6	1.20082
	Rooted	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	55.1759	60.2621	1.09218
495	Measured	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	10804.7	12363.6	1.14428
	Ranked	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	220.171	235.979	1.0718
	Squared	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4]	30286.5	36362	1.2006

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.