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

Results: HTML CSV LaTeX

Showing element 951 to 1000 of 3730 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	Filtered	red	green	network_comparison
476	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655]	0	1362.55	1372.31	1.00716
	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]	1	9649.61	11053.5	1.14549
477	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	0	426	429	1.00704
	nitrogen fixation cluster-like. [refseq;acc:nm_014301]	1	9649.61	11053.5	1.14549
478	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8]
	survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637]	0	705.758	701.071	1.00669
479	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]		1318.37	1310.67	1.00587
	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502]	1	9649.61	11053.5	1.14549
480	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822]
	orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466]	0	6428	6396.8	1.00488
481	mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [swissprot;acc:q99683]		565.785	563.113	1.00475
	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635]	1	9649.61	11053.5	1.14549
482	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]
	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	0	793.778	796.85	1.00387
483	neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681]	1	9649.61	11053.5	1.14549
	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]	0	20612.9	20672.6	1.0029
484	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]	1	9649.61	11053.5	1.14549
	scribble. [refseq;acc:nm_015356]	0	958.429	961.098	1.00278
485	high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13]		22850.1	22797.8	1.00229
	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [swissprot;acc:q9nra0]	1	9649.61	11053.5	1.14549
486	nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497]	0	22878.7	22826.8	1.00227
	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	1	10908.6	12491.8	1.14513
487	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]		5277.4	6042.88	1.14505
	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154]	0	250.419	249.857	1.00225
488	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	1	10872.4	12447	1.14483
	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]	0	250.419	249.857	1.00225
489	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]		22946.3	22895.1	1.00224
	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	1	5281.11	6044.61	1.14457
490	high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6]	0	22940.1	22888.8	1.00224
	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	1	15274.9	13346.9	1.14445
491	high mobility group protein 1 (hmg-1). [swissprot;acc:p09429]	0	22962	22910.9	1.00223
	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]	1	5980.15	6843.48	1.14437
492	3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	0	5038.33	5046.33	1.00159
	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	1	5979.94	6842.76	1.14429
493	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]		5979.95	6842.78
	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	0	2410.35	2411.78	1.00059
494	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]	1	5979.93	6842.72	1.14428
	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]	0	0.00001	0.00001	1
495	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	1	10804.7	12363.6	1.14428
496	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]	0	0.00001	0.00001	1
	nostrin. [refseq;acc:nm_052946]	1	4682.87	4093.05	1.1441
497	eap30 subunit of ell complex. [refseq;acc:nm_007241]
	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]	0	0.00001	0.00001	1
498	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]	1	4682.87	4093.05	1.1441
	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]	0	0.00001	0.00001	1
499	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]	1	4682.87	4093.05	1.1441
	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]	0	0.00001	0.00001	1
500	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747]	1	4682.87	4093.05	1.1441
	rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]	0	0.00001	0.00001	1

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.