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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 1908 to 1957 of 3228 in total

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

Rank	description	red	network_comparison	green
1908	dc11 protein. [refseq;acc:nm_020186]	6858.84	1.06246	7287.27
1909	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [refseq;acc:nm_003905]
1910	5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557]
1911	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]
1912	ubiquitin-activating enzyme e1 (a1s9 protein). [swissprot;acc:p22314]
1913	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [swissprot;acc:o75746]
1914	melanoma antigen recognized by t cells 2. [refseq;acc:nm_018194]
1915	5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196]
1916	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [swissprot;acc:q9ujs0]
1917	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]
1918	seven in absentia homolog 1. [refseq;acc:nm_003031]	5394.24	1.06238	5730.73
1919	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	5444.6	1.06233	5783.95
1920	basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	6262.66	1.0623	6652.85
1921	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162]
1922	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	5567.41	1.06226	5914.05
1923	brain protein 16. [refseq;acc:nm_016458]	5774.02	1.06217	6133.01
1924	transcriptional adaptor 3-like isoform a. [refseq;acc:nm_006354]	7260.23	1.06213	7711.3
1925	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]			7711.29
1926	frg1 protein (fshd region gene 1 protein). [swissprot;acc:q14331]			7711.3
1927	transcriptional adapter 2-like (ada2-like protein) (kl04p). [swissprot;acc:o75478]
1928	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	7514.8	1.06193	7980.22
1929	pxr2b protein. [refseq;acc:nm_016559]	6996.51	1.06184	7429.18
1930	p28 ing5. [refseq;acc:nm_032329]	5784.06	1.06179	6141.48
1931	ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1]	9946.21	1.06176	9367.66
1932	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	10300	1.06171	9701.33
1933	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]
1934	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	5949.31	1.06115	6313.1
1935	serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [swissprot;acc:o15269]	6167.29	1.0611	6544.12
1936	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	5171.45	1.06101	5486.96
1937	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044]
1938	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]
1939	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	5669.9	1.061	6015.75
1940	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	4450.17	1.06094	4721.37
1941	rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277]	5521.07	1.06083	5856.93
1942	pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]	5805.06		6158.16
1943	p300/cbp-associated factor (ec 2.3.1.-) (p/caf) (histone acetylase pcaf). [swissprot;acc:q92831]	7210.87	1.06079	7649.23
1944	general control of amino acid synthesis protein 5-like 2 (ec 2.3.1.-) (histone acetyltransferase gcn5) (hsgcn5). [swissprot;acc:q92830]	7210.64		7648.94
1945	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528]	6230.21	1.06074	6608.64
1946	cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]
1947	transcription initiation factor tfiid 100 kda subunit (tafii-100) (tafii100). [swissprot;acc:q15542]	7195.76		7632.83
1948	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]	6230.21		6608.64
1949	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [swissprot;acc:q92890]
1950	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292]	5888.32	1.06073	6245.89
1951	fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [swissprot;acc:o00519]
1952	coactosin-like protein. [swissprot;acc:q14019]
1953	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [swissprot;acc:p13051]
1954	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]
1955	28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	5195.3	1.0607	5510.67
1956	nin one binding protein; adenocarcinoma antigen recognized by t lymphocytes 4. [refseq;acc:nm_014062]	4689.78	1.06048	4973.44
1957	transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514]	7019.78	1.06044	7444.06

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.