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

Results: HTML CSV LaTeX

Showing element 2401 to 2450 of 12912 in total

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

Rank	Hugo	description	red	green	network_comparison
2401	CRX	cone-rod homeobox protein. [swissprot;acc:o43186]	5694.04	5916.78	1.03912
2402	no value	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	5078.5	5275.76	1.03884
2403	RPS21	40s ribosomal protein s21. [swissprot;acc:p35265]
2404	SERPINB9	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]
2405	no value	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
2406	SERPINB10	bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]
2407	SERPINB8	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]
2408	no value	serpin b11. [swissprot;acc:q96p15]
2409	SERPINB6	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]
2410	no value	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
2411	SERPINB1	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]
2412	DCTN5	dynactin 4. [refseq;acc:nm_032486]	4644.04	4470.47	1.03883
2413	CCBL1	cytoplasmic cysteine conjugate-beta lyase; glutamine-phenylpyruvate aminotransferase. [refseq;acc:nm_004059]	6956.32	7223.14	1.03836
2414	GPT2	alanine aminotransferase 2; glutamic-pyruvate transaminase 2. [refseq;acc:nm_133443]
2415	GPT	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	6956.62	7223.09	1.0383
2416	DRAP1	dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442]	8048.38	7752.09	1.03822
2417	MRPL11	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	3598.55	3467.65	1.03775
2418	no value	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	4857.03	5039.78	1.03763
2419	TXNDC2	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243]
2420	TXN	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599]
2421	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	7355.46	7088.93	1.0376
2422	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]
2423	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]
2424	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]
2425	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]
2426	DR1	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	6123.47	6351.84	1.03729
2427	MRPS2	mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399]	5333.6	5531.41	1.03709
2428	FXR2	fragile x mental retardation syndrome related protein 2. [swissprot;acc:p51116]	7243.19	7509.81	1.03681
2429	FXR1	fragile x mental retardation syndrome related protein 1. [swissprot;acc:p51114]
2430	NUP43	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	7243.07	7509.58	1.0368
2431	FMR1	fragile x mental retardation 1 protein (protein fmr-1) (fmrp). [swissprot;acc:q06787]	7242.75	7508.98	1.03676
2432	BLOC1S1	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]	8154.48	8453.84	1.03671
2433	MRPL27	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	4585.86	4753.26	1.0365
2434	WDR26	wd repeat domain 26. [refseq;acc:nm_025160]	6423.46	6655.9	1.03619
2435	FHL5	activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482]	3669.33	3797.78	1.03501
2436	RPS14	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	3708.67	3584.47	1.03465
2437	no value	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]
2438	SNUPN	rna, u transporter 1; snurportin-1. [refseq;acc:nm_005701]	7139.06	7384.85	1.03443
2439	no value	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]	3754.39	3629.51	1.03441
2440	IMP4	u3 snornp protein 4 homolog. [refseq;acc:nm_033416]	4730.66	4891.26	1.03395
2441	AP3M2	adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677]	6477.82	6695.58	1.03362
2442	BRCA1	breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]	5454.62	5637.88	1.0336
2443	FHL3	skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643]	3634.59	3756.67	1.03359
2444	AP3M1	adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2]	6478.14	6695.67	1.03358
2445	FHL2	skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192]	3633.14	3754.96	1.03353
2446	POLR2D	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	4031.94	4166.99	1.0335
2447	MRPL13	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	3730.53	3611.05	1.03309
2448	RPS16	40s ribosomal protein s16. [swissprot;acc:p17008]
2449	RPL13A	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	3730.74	3611.45	1.03303
2450	PDHB	pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]	6737.15	6957.34	1.03268

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.