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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3730 in total

Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	green	red	network_comparison
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	15915	4294	3.70633
2	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	14977	5865	2.55362
3	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	11083.9	4475.84	2.47638
4	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	21883	8906	2.45711
5	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	11965.7	5510.5	2.17144
6	ubiquitin protein ligase. [refseq;acc:nm_130466]	15339.2	7523	2.03897
7	cab2. [refseq;acc:nm_033419]	10950	21866	1.99689
8	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	21888	11525	1.89918
9	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
10	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	14178.1	7509.39	1.88805
11	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	6248	11627	1.86092
12	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]	5208.84	9429.18	1.81023
13	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]	9264.5	5210.5	1.77804
14	dystrophin. [swissprot;acc:p11532]	18054.8	10232.5	1.76446
15	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	11267	19403	1.72211
16	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	20670.6	12170.7	1.69839
17	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	6812	11543	1.69451
18	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	13216	22286	1.68629
19	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
20	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
21	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	10621.4	6313.38	1.68236
22	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	12479	20989	1.68195
23	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	9285.44	15520.4	1.67148
24	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	8257	13730.5	1.66289
25	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]
26	dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122]	7533.33	12128.3	1.60995
27	ptd016 protein. [refseq;acc:nm_016125]	11234	18050	1.60673
28	p28 ing5. [refseq;acc:nm_032329]	7562.05	12124.8	1.60337
29	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	11625	7395	1.57201
30	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
31	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	5266.67	8082.33	1.53462
32	importin 9. [refseq;acc:nm_018085]	8691.76	13292.2	1.52929
33	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]
34	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	17173.8	11284	1.52196
35	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	4871.6	3208.8	1.5182
36	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	14964	22422	1.4984
37	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	2582	3859	1.49458
38	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	10771	7230	1.48976
39	ero1-like. [refseq;acc:nm_014584]	20536	13853	1.48242
40	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	5699	3845	1.48218
41	60s ribosomal protein l21. [swissprot;acc:p46778]	6758.83	9994.33	1.47871
42	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	5530.5	8158	1.47509
43	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	8356.02	12143.8	1.4533
44	serpin b12. [swissprot;acc:q96p63]	21138.6	14604.2	1.44743
45	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	21113.7	14592	1.44694
46	60s ribosomal protein l37a. [swissprot;acc:p12751]	18499.2	12941.7	1.42943
47	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]
48	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]	6909	9830	1.42278
49	brain protein 16. [refseq;acc:nm_016458]	4854.99	6890.54	1.41927
50	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	13091.4	9249.73	1.41533

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.