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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 1925 to 1974 of 12912 in total

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

Rank	Hugo	description	Value Type	red	green	network_comparison
482	no value	histone h2b.s (h2b/s). [swissprot;acc:p57053]	Rooted	50.6084	55.2961	1.09263
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Ranked	237.109	254.667	1.07405
	MAPK14	mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [swissprot;acc:q16539]	Measured	9649.61	11053.5	1.14549
	SLC13A3	solute carrier family 13, member 3 (sodium-dependent high-affinity dicarboxylate transporter 2) (na(+)/dicarboxylate cotransporter 3) (nadc-3) (hnadc3). [swissprot;acc:q8wwt9]	Squared	26867.3	32335.2	1.20352
483	no value	histone h2b.d (h2b/d). [swissprot;acc:q99877]	Rooted	50.6084	55.2961	1.09263
	CHRNA4	neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681]	Measured	9649.61	11053.5	1.14549
	RUNX2	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]	Ranked	237.109	254.667	1.07405
	SLC13A2	solute carrier family 13, member 2 (renal sodium/dicarboxylate cotransporter) (na(+)/dicarboxylate cotransporter 1) (nadc-1). [swissprot;acc:q13183]	Squared	26867.3	32335.2	1.20352
484	CHRNA3	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]	Measured	9649.61	11053.5	1.14549
	HIST3H3	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	Rooted	50.6084	55.2961	1.09263
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	Ranked	237.109	254.667	1.07405
	SLC13A4	solute carrier family 13, member 4 (na+/sulfate cotransporter sut-1). [swissprot;acc:q9ukg4]	Squared	26867.2	32335	1.20351
485	HIST1H2BA	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610]	Rooted	50.6084	55.2961	1.09263
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Ranked	237.109	254.667	1.07405
	SLC13A1	solute carrier family 13, member 1 (renal sodium/sulfate cotransporter) (na(+)/sulfate cotransporter) (hnasi-1). [swissprot;acc:q9bzw2]	Squared	26867.2	32335	1.20351
	SPHK2	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [swissprot;acc:q9nra0]	Measured	9649.61	11053.5	1.14549
486	no value	histone h2b.e (h2b/e). [swissprot;acc:q99879]	Rooted	50.6084	55.2961	1.09263
	CLEC11A	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	Measured	10908.6	12491.8	1.14513
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	Ranked	226.313	243.03	1.07387
	SCAMP2	secretory carrier-associated membrane protein 2. [swissprot;acc:o15127]	Squared	26865.9	32332.9	1.20349
487	no value	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]	Rooted	50.0015	54.627	1.09251
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	Ranked	226.313	243.03	1.07387
	PYCR2	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	Measured	5277.4	6042.88	1.14505
	SCAMP3	secretory carrier-associated membrane protein 3. [swissprot;acc:o14828]	Squared	26865.9	32332.9	1.20349
488	CLEC3A	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	Measured	10872.4	12447	1.14483
	POLR3A	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	Rooted	50.4315	46.1703	1.09229
	SART1	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]	Ranked	225.026	209.798	1.07258
	SCAMP1	secretory carrier-associated membrane protein 1. [swissprot;acc:o15126]	Squared	26866.1	32333.2	1.20349
489	CDS2	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
	MRPL12	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	Rooted	50.5505	46.2797	1.09228
	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	Ranked	231.276	215.627	1.07257
	PYCR1	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	Measured	5281.11	6044.61	1.14457
490	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	Ranked	220.183	236.015	1.0719
	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Squared	5301.97	6377.93	1.20294
	NUDT12	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	Rooted	50.5505	46.2797	1.09228
	PPP1R13B	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	Measured	15274.9	13346.9	1.14445
491	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Squared	5302.25	6378.24	1.20293
	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Ranked	251.83	234.951	1.07184
	NAV2	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]	Measured	5980.15	6843.48	1.14437
	PARK2	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	Rooted	55.1759	60.2621	1.09218
492	no value	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]
	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Squared	5313	6389.9	1.20269
	NAV1	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	Measured	5979.94	6842.76	1.14429
	PAK2	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]	Ranked	220.171	235.979	1.0718
493	no value	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	Rooted	55.1759	60.2621	1.09218
	AGXT	serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549]	Squared	28408.7	34148.5	1.20204
	COG5	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]	Ranked	220.172	235.98	1.0718
	NAV3	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]	Measured	5979.95	6842.78	1.14429
494	ANKS1B	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]		5979.93	6842.72	1.14428
	ETFA	electron transfer flavoprotein alpha-subunit, mitochondrial precursor (alpha-etf). [swissprot;acc:p13804]	Squared	31583	37925.6	1.20082

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
- Hugo is the HGNC identifier if it exists
- 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.