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.


Navigation/Query Panel:
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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 7460 in total 
Value Type	Ranked
Interaction Map	High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison	
13	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [source:swissprot;acc:p08107]	Divided	0	5210.5	9264.5	1.77804	
13	protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8]	Divided	1	288.754	212.554	1.3585	
14	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [source:refseq;acc:nm_052936]	Divided	1	56.6768	75.3531	1.32952	
14	dystrophin. [source:swissprot;acc:p11532]	Divided	0	10232.5	18054.8	1.76446	
14	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [source:swissprot;acc:p50150]	Subtracted	1	266.863	336.191	69.328	
14	ubiquitin protein ligase. [source:refseq;acc:nm_130466]	Subtracted	0	7523	15339.2	7816.2	
15	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). [source:swissprot;acc:q9byb4]	Subtracted	0	22422	14964	7458	
15	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [source:swissprot;acc:p29798]	Subtracted	1	266.863	336.19	69.327	
15	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8]	Divided	1	56.7244	75.3948	1.32914	
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). [source:swissprot;acc:o14521]	Divided	0	19403	11267	1.72211	
16	cyclin h (mo15-associated protein) (p37) (p34). [source:swissprot;acc:p51946]	Divided	0	12170.7	20670.6	1.69839	
16	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [source:swissprot;acc:q9uk08]	Subtracted	1	266.864	336.184	69.32	
16	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492]	Divided	1	56.7252	75.3954	1.32913	
16	ptd016 protein. [source:refseq;acc:nm_016125]	Subtracted	0	18050	11234	6816	
17	cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326]	Divided	1	56.7841	75.447	1.32866	
17	ero1-like. [source:refseq;acc:nm_014584]	Subtracted	0	13853	20536	6683	
17	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [source:refseq;acc:nm_013402]	Divided	0	11543	6812	1.69451	
17	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [source:swissprot;acc:p30670]	Subtracted	1	266.864	336.182	69.318	
18	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446]	Divided	1	185.678	245.247	1.32082	
18	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [source:swissprot;acc:o00757]	Subtracted	0	7509.39	14178.1	6668.71	
18	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [source:swissprot;acc:p50151]	Subtracted	1	266.865	336.181	69.316	
18	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	Divided	0	22286	13216	1.68629	
19	glycogen phosphorylase, brain form (ec 2.4.1.1). [source:swissprot;acc:p11216]	Divided	1	185.678	245.247	1.32082	
19	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [source:swissprot;acc:q9y3k8]	Subtracted	1	266.865	336.178	69.313	
19	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	Divided	0	22286	13216	1.68629	
19	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [source:swissprot;acc:q9gzt8]	Subtracted	0	4475.84	11083.9	6608.06	
20	glycogen phosphorylase, liver form (ec 2.4.1.1). [source:swissprot;acc:p06737]	Divided	1	185.678	245.247	1.32082	
20	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [source:swissprot;acc:p50152]	Subtracted	1	266.868	336.159	69.291	
20	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	Divided	0	22286	13216	1.68629	
20	serpin b12. [source:swissprot;acc:q96p63]	Subtracted	0	14604.2	21138.6	6534.4	
21	acrc protein; putative nuclear protein. [source:refseq;acc:nm_052957]	Divided	0	6313.38	10621.4	1.68236	
21	gbp protein isoform a. [source:refseq;acc:nm_017870]	Subtracted	1	325.586	256.492	69.094	
21	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	Subtracted	0	14592	21113.7	6521.7	
21	myosin xv (unconventional myosin-15). [source:swissprot;acc:q9ukn7]	Divided	1	185.678	245.247	1.32082	
22	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [source:swissprot;acc:p11217]	Divided	1	185.678	245.247	1.32082	
22	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256]	Subtracted	1	322	253	69	
22	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	Divided	0	20989	12479	1.68195	
22	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [source:swissprot;acc:p55855]	Subtracted	0	5510.5	11965.7	6455.2	
23	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5]	Divided	1	58	44	1.31818	
23	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [source:refseq;acc:nm_004712]	Divided	0	15520.4	9285.44	1.67148	
23	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [source:refseq;acc:nm_004712]	Subtracted	0	15520.4	9285.44	6234.96	
23	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	Subtracted	1	322	253	69	
24	ba508n22.1 (hspc025) (fragment). [source:sptrembl;acc:q9hcw5]	Divided	0	13730.5	8257	1.66289	
24	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [source:swissprot;acc:q8te04]	Divided	1	58	44	1.31818	
24	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	Subtracted	1	322	253	69	
24	sedlin. [source:swissprot;acc:o14582]	Subtracted	0	22440	16388	6052	
25	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [source:swissprot;acc:q15485]	Subtracted	1	322	253	69	
25	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [source:swissprot;acc:p50851]	Divided	0	13730.5	8257	1.66289	
25	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [source:swissprot;acc:q9bz23]	Divided	1	58	44	1.31818	
25	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	Subtracted	0	22440	16388	6052	

Legend:
- Rank is the rank after comparing the two networks
- 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/