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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 29840 in total

Interaction Map  : High confidence
Value Type  : Measured
Filtered  : 0

Rank	green	description	red	Network Comparison Type	network_comparison
1	0.00001	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	364	Divided	36400000
	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	Subtracted	6325
2	174	cab2. [refseq;acc:nm_033419]	0.00001	Divided	17400000
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	85	Subtracted	6325
3	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	0.00001	Divided	10900000
	19621.3	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	23818.1	Subtracted	4196.8
4	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0.00001	Divided	8900000
	21730	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	18704	Subtracted	3026
5	89	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	0.00001	Divided	8900000
	24446.3	histone h4. [swissprot;acc:p02304]	21773.1	Subtracted	2673.2
6	89	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0.00001	Divided	8900000
	15605.1	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]	13174.7	Subtracted	2430.4
7	43	sedlin. [swissprot;acc:o14582]	0.00001	Divided	4300000
	15605.1	zinc finger protein 277. [swissprot;acc:q9nrm2]	13174.7	Subtracted	2430.4
8	43	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0.00001	Divided	4300000
	7500.75	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	5106.93	Subtracted	2393.82
9	6410	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	85	Divided	75.4118
	14756	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	12478	Subtracted	2278
10	6193.07	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	7830.62		1637.55
	6410	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	85	Divided	75.4118
11	5.56738	serpin b12. [swissprot;acc:q96p63]	199.549		35.8425
	7252.02	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	5734.28	Subtracted	1517.74
12	5.71669	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	199.249	Divided	34.8539
	7099.51	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	5629.62	Subtracted	1469.89
13	47	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	1363	Divided	29
				Subtracted	1316
14	6.50325	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	130.512	Divided	20.0687
	12125.1	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	10817.1	Subtracted	1308
15	156	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]	10	Divided	15.6
	6685.11	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	7981.68	Subtracted	1296.57
16	15	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	1	Divided	15
	7572.88	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	8852.4	Subtracted	1279.52
17	58	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	859	Divided	14.8103
	12473	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	11223	Subtracted	1250
18	26.1599	60s ribosomal protein l37a. [swissprot;acc:p12751]	305.45	Divided	11.6763
	14167	anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]	15411.3	Subtracted	1244.3
19	26.1599	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]	305.45	Divided	11.6763
	2804	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	1593	Subtracted	1211
20	0.00001	ero1-like. [refseq;acc:nm_014584]	82	Divided	8200000
	7608	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]	8763	Subtracted	1155
21	17.6611	syntaxin 10 (syn10). [swissprot;acc:o60499]	118.878	Divided	6.73106
	5690.63	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily d member 1 (swi/snf complex 60 kda subunit) (brg1- associated factor 60a). [swissprot;acc:q96gm5]	6804.88	Subtracted	1114.25
22	0.00001	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	60	Divided	6000000
	30022.4	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	31122	Subtracted	1099.6
23	59	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]	0.00001	Divided	5900000
	5540.2	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	6596.23	Subtracted	1056.03
24	158	ptd016 protein. [refseq;acc:nm_016125]	30	Divided	5.26667
	2208.1	fos-related antigen 2. [swissprot;acc:p15408]	3233.86	Subtracted	1025.76
25	773	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	148	Divided	5.22297
	1377	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	459.5	Subtracted	917.5

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.