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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 475 to 524 of 12912 in total

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

Rank	Hugo	description	red	green	network_comparison
475	MAPKAPK2	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [swissprot;acc:p49137]	9649.61	11053.5	1.14549
476	CHRNA6	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825]
477	ISCU	nitrogen fixation cluster-like. [refseq;acc:nm_014301]
478	STARD13	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8]
479	STARD8	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502]
480	CHRNA2	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822]
481	MAPKAPK3	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635]
482	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]
483	CHRNA4	neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681]
484	CHRNA3	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]
485	SPHK2	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [swissprot;acc:q9nra0]
486	CLEC11A	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	10908.6	12491.8	1.14513
487	PYCR2	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	5277.4	6042.88	1.14505
488	CLEC3A	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	10872.4	12447	1.14483
489	PYCR1	pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]	5281.11	6044.61	1.14457
490	PPP1R13B	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	15274.9	13346.9	1.14445
491	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]	5980.15	6843.48	1.14437
492	NAV1	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
493	NAV3	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]	5979.95	6842.78
494	ANKS1B	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]	5979.93	6842.72	1.14428
495	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	10804.7	12363.6
496	NOSTRIN	nostrin. [refseq;acc:nm_052946]	4682.87	4093.05	1.1441
497	SNF8	eap30 subunit of ell complex. [refseq;acc:nm_007241]
498	SLC39A6	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]
499	GAD2	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]
500	NAPG	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747]
501	GAD1	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]
502	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	6913.6	7907.05	1.1437
503	TP53BP2	tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625]	15182.5	13277.9	1.14344
504	ECHS1	enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084]	10067.9	11511	1.14334
505	CBLB	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]	6856.71	7838.3	1.14316
506	EIF6	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	3893.85	4450.98	1.14308
507	CBL	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681]	6875.08	7858.38	1.14302
508	AGPAT2	1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	7556.75	8636.87	1.14293
509	no value	1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	7551.8	8630.06	1.14278
510	GRB2	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	5975.11	6826.24	1.14245
511	NEK2	serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955]
512	no value	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	10807.4	12338.5	1.14167
513	AGPAT3	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	7485.08	8543.66	1.14143
514	AGPAT4	1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5]	7477	8532.02	1.1411
515	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	3890.53	4439.07	1.14099
516	GALK2	n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415]	4910.6	5600.61	1.14051
517	no value	galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902]
518	GALE	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]
519	GYS1	glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	9648.27	10994.9	1.13957
520	no value	endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759]	9642.22	10986.4	1.13941
521	PRPF3	u4/u6-associated rna splicing factor. [refseq;acc:nm_004698]	5390.78	6142.07	1.13937
522	GYS2	glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	9634.98	10976.2	1.1392
523	AQP4	aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087]	10640.2	12117.8	1.13887
524	AQP5	aquaporin 5. [swissprot;acc:p55064]	10640	12117.6

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.