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

Results: HTML CSV LaTeX

Showing element 1908 to 1957 of 12912 in total

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

Rank	Hugo	description	red	green	network_comparison
1908	no value	dc11 protein. [refseq;acc:nm_020186]	6858.84	7287.27	1.06246
1909	APPBP1	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [refseq;acc:nm_003905]
1910	ALAS2	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	UBE1C	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]
1912	UBE1	ubiquitin-activating enzyme e1 (a1s9 protein). [swissprot;acc:p22314]
1913	SLC25A12	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [swissprot;acc:o75746]
1914	HHAT	melanoma antigen recognized by t cells 2. [refseq;acc:nm_018194]
1915	ALAS1	5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196]
1916	SLC25A13	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [swissprot;acc:q9ujs0]
1917	NDUFAB1	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561]
1918	no value	seven in absentia homolog 1. [refseq;acc:nm_003031]	5394.24	5730.73	1.06238
1919		hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	5444.6	5783.95	1.06233
1920		basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	6262.66	6652.85	1.0623
1921	PRB4	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162]
1922	CDC37	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	5567.41	5914.05	1.06226
1923	no value	brain protein 16. [refseq;acc:nm_016458]	5774.02	6133.01	1.06217
1924	TADA3L	transcriptional adaptor 3-like isoform a. [refseq;acc:nm_006354]	7260.23	7711.3	1.06213
1925	BRD7	bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]		7711.29
1926	FRG1	frg1 protein (fshd region gene 1 protein). [swissprot;acc:q14331]		7711.3
1927	TADA2L	transcriptional adapter 2-like (ada2-like protein) (kl04p). [swissprot;acc:o75478]
1928	SOS1	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	7514.8	7980.22	1.06193
1929	PEX5L	pxr2b protein. [refseq;acc:nm_016559]	6996.51	7429.18	1.06184
1930	ING5	p28 ing5. [refseq;acc:nm_032329]	5784.06	6141.48	1.06179
1931	RNF25	ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1]	9946.21	9367.66	1.06176
1932	HGS	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	10300	9701.33	1.06171
1933	COG7	conserved oligomeric golgi complex component 7. [swissprot;acc:p83436]
1934	TBL2	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	5949.31	6313.1	1.06115
1935	SPTLC1	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	6544.12	1.0611
1936	no value	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	5171.45	5486.96	1.06101
1937	NSUN5	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	NSUN5B	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]
1939	BARD1	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	5669.9	6015.75	1.061
1940	CDC25C	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	4450.17	4721.37	1.06094
1941	RACGAP1	rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277]	5521.07	5856.93	1.06083
1942	no value	pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]	5805.06	6158.16
1943	PCAF	p300/cbp-associated factor (ec 2.3.1.-) (p/caf) (histone acetylase pcaf). [swissprot;acc:q92831]	7210.87	7649.23	1.06079
1944	GCN5L2	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	CFL1	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [swissprot;acc:p23528]	6230.21	6608.64	1.06074
1946	CFL2	cofilin, muscle isoform (cofilin 2). [swissprot;acc:q9y281]
1947	TAF5	transcription initiation factor tfiid 100 kda subunit (tafii-100) (tafii100). [swissprot;acc:q15542]	7195.76	7632.83
1948	DSTN	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]	6230.21	6608.64
1949	UFD1L	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [swissprot;acc:q92890]
1950	QRSL1	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292]	5888.32	6245.89	1.06073
1951	FAAH	fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [swissprot;acc:o00519]
1952	COTL1	coactosin-like protein. [swissprot;acc:q14019]
1953	UNG	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [swissprot;acc:p13051]
1954	PET112L	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	MRPS16	28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	5195.3	5510.67	1.0607
1956	NOB1	nin one binding protein; adenocarcinoma antigen recognized by t lymphocytes 4. [refseq;acc:nm_014062]	4689.78	4973.44	1.06048
1957	TAF12	transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514]	7019.78	7444.06	1.06044

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
- Hugo is the HGNC identifier if it exists
- 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.