Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 29840 in total

Value Type

: Measured
Interaction Map

: High confidence

Rank	description	Filtered	Network Comparison Type	red	green	network_comparison
13	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	1	Divided	398.5	1281.5	3.21581
13	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	1	Subtracted	21591.5	27904.5	6313
14	apoptosis inhibitor fksg2. [swissprot;acc:q9hau6]	0	Subtracted	10817.1	12125.1	1308
	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	0	Divided	130.512	6.50325	20.0687
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	1	Subtracted	21591.5	27904.5	6313
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]		Divided	398.5	1281.5	3.21581
15	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]		Subtracted	21591.5	27904.5	6313
	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]	0	Divided	10	156	15.6
	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]	0	Subtracted	7981.68	6685.11	1296.57
	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	1	Divided	2671	871	3.06659
16	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	1	Subtracted	24260.3	18172.1	6088.2
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]	0	Subtracted	8852.4	7572.88	1279.52
	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	0	Divided	1	15	15
	protein x 0004. [refseq;acc:nm_016301]	1	Divided	2671	871	3.06659
17	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	0	Subtracted	11223	12473	1250
	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	1	Divided	460	1365	2.96739
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	1	Subtracted	24255.7	18168.9	6086.8
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	0	Divided	859	58	14.8103
18	60s ribosomal protein l37a. [swissprot;acc:p12751]		Divided	305.45	26.1599	11.6763
	anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]		Subtracted	15411.3	14167	1244.3
	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	1	Subtracted	24255.7	18168.9	6086.8
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	1	Divided	677.5	1865.5	2.75351
19	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]	0	Divided	305.45	26.1599	11.6763
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	1	Subtracted	24250	18164.9	6085.1
	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	0	Subtracted	1593	2804	1211
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	1	Divided	677.5	1865.5	2.75351
20	ero1-like. [refseq;acc:nm_014584]	0	Divided	82	0.00001	8200000
	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	1	Subtracted	23421.5	17580.4	5841.1
	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]	0	Subtracted	8763	7608	1155
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	1	Divided	677.5	1865.5	2.75351
21	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]		Divided	677.5	1865.5	2.75351
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]		Subtracted	23693.7	18263	5430.7
	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]	0	Subtracted	6804.88	5690.63	1114.25
	syntaxin 10 (syn10). [swissprot;acc:o60499]	0	Divided	118.878	17.6611	6.73106
22	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	1	Subtracted	23693.7	18263	5430.7
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	1	Divided	677.5	1865.5	2.75351
	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	0	Divided	60	0.00001	6000000
	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]		Subtracted	31122	30022.4	1099.6
23	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]		Subtracted	6596.23	5540.2	1056.03
	gbp protein isoform a. [refseq;acc:nm_017870]	1	Divided	699.76	1894.39	2.7072
	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	Divided	0.00001	59	5900000
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	1	Subtracted	23693.7	18263	5430.7
24	fos-related antigen 2. [swissprot;acc:p15408]	0		3233.86	2208.1	1025.76
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	1		23693.7	18263	5430.7
	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	1	Divided	950.561	2108.52	2.21818
	ptd016 protein. [refseq;acc:nm_016125]	0	Divided	30	158	5.26667
25	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	0	Subtracted	459.5	1377	917.5
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	1	Divided	1833.01	892.67	2.0534
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	1	Subtracted	23693.7	18263	5430.7
	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	0	Divided	148	773	5.22297

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.

- http://analysis.yellowcouch.org/