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

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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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 1873 to 1922 of 3228 in total

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

Rank	description	red	green	network_comparison	
1873	40s ribosomal protein s11. [source:swissprot;acc:p04643]	3618.46	3402.09	1.0636	
1874	ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [source:swissprot;acc:q9un86]	6076.66	6463.12	1.0636	
1875	keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	6076.66	6463.14	1.0636	
1876	espin. [source:refseq;acc:nm_031475]	6076.66	6463.12	1.0636	
1877	cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [source:swissprot;acc:p10635]	6076.66	6463.12	1.0636	
1878	pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [source:refseq;acc:nm_006832]	6076.66	6463.12	1.0636	
1879	lim and senescent cell antigen-like domains 2; ilk-binding protein. [source:refseq;acc:nm_017980]	6076.66	6463.12	1.0636	
1880	d(4) dopamine receptor (d(2c) dopamine receptor). [source:swissprot;acc:p21917]	6076.66	6463.12	1.0636	
1881	keratin associated protein 9-4; keratin associated protein 9.4. [source:refseq;acc:nm_033191]	6076.68	6462.56	1.0635	
1882	eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [source:swissprot;acc:p41091]	5490.24	5838.67	1.06346	
1883	26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [source:swissprot;acc:q99460]	5826	6195.48	1.06342	
1884	adhesion regulating molecule 1 precursor (110 kda cell membrane glycoprotein) (gp110). [source:swissprot;acc:q16186]	5826	6195.48	1.06342	
1885	ubiquitin carboxyl-terminal hydrolase isozyme l5 (ec 3.4.19.12) (uch- l5) (ubiquitin thiolesterase l5) (ubiquitin c-terminal hydrolase uch37) (cgi-70) (ad-019). [source:swissprot;acc:q9y5k5]	5826	6195.48	1.06342	
1886	rna polymerase ii subunit 5-mediating protein (rpb5-mediating protein). [source:swissprot;acc:o94763]	5826	6195.48	1.06342	
1887	protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [source:refseq;acc:nm_003981]	5438.6	5783.11	1.06335	
1888	bromodomain-containing protein 4 (hunk1 protein). [source:swissprot;acc:o60885]	5438.6	5783.11	1.06335	
1889	testis-specific bromodomain protein. [source:refseq;acc:nm_001726]	5438.68	5783.2	1.06335	
1890	nag14 protein. [source:refseq;acc:nm_022143]	5438.6	5783.11	1.06335	
1891	bromodomain-containing protein 3 (ring3-like protein). [source:swissprot;acc:q15059]	5438.18	5782.62	1.06334	
1892	bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [source:swissprot;acc:p25440]	5438.52	5783.01	1.06334	
1893	acid ceramidase precursor (ec 3.5.1.23) (acylsphingosine deacylase) (n-acylsphingosine amidohydrolase) (ac) (putative 32 kda heart protein) (php32). [source:swissprot;acc:q13510]	6830.4	7261.98	1.06319	
1894	60s ribosomal protein l17 (l23). [source:swissprot;acc:p18621]	3598.08	3384.59	1.06308	
1895	ruvb-like 1 (ec 3.6.1.-) (49-kda tata box-binding protein-interacting protein) (49 kda tbp-interacting protein) (tip49a) (pontin 52) (nuclear matrix protein 238) (nmp 238) (54 kda erythrocyte cytosolic protein) (ecp-54) (tip60-associated protein 54-alpha) (tap54-alpha). [source:swissprot;acc:q9y265]	5882.1	6252.66	1.063	
1896	m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [source:swissprot;acc:p30304]	4521	4805.16	1.06285	
1897	thioredoxin-like; pkc-interacting cousin of thioredoxin. [source:refseq;acc:nm_006541]	4590.74	4879.11	1.06282	
1898	3-hydroxyisobutyryl-coenzyme a hydrolase. [source:refseq;acc:nm_014362]	6885.11	7317.48	1.0628	
1899	ruvb-like 2 (ec 3.6.1.-) (48-kda tata box-binding protein-interacting protein) (48-kda tbp-interacting protein) (tip49b) (repressing pontin 52) (reptin 52) (51 kda erythrocyte cytosolic protein) (ecp-51) (tip60-associated protein 54-beta) (tap54-beta) (cgi-46). [source:swissprot;acc:q9y230]	5786.36	6149.1	1.06269	
1900	seven in absentia homolog 2. [source:refseq;acc:nm_005067]	5399.47	5737.79	1.06266	
1901	inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [source:swissprot;acc:q15181]	5204.25	5530.11	1.06261	
1902	inorganic pyrophosphatase 2 isoform 1. [source:refseq;acc:nm_176869]	5204.25	5530.11	1.06261	
1903	aryl-hydrocarbon interacting protein-like 1. [source:swissprot;acc:q9nzn9]	5204.25	5530.11	1.06261	
1904	ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [source:swissprot;acc:o00170]	5204.25	5530.11	1.06261	
1905	son of sevenless protein homolog 2 (sos-2). [source:swissprot;acc:q07890]	7497.96	7967.09	1.06257	
1906	mitochondrial ribosomal protein l18. [source:refseq;acc:nm_014161]	5396.61	5733.93	1.06251	
1907	hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [source:refseq;acc:nm_023934]	6858.84	7287.27	1.06246	
1908	dc11 protein. [source:refseq;acc:nm_020186]	6858.84	7287.27	1.06246	
1909	amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [source:refseq;acc:nm_003905]	6858.84	7287.27	1.06246	
1910	5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [source:swissprot;acc:p22557]	6858.84	7287.27	1.06246	
1911	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [source:refseq;acc:nm_003968]	6858.84	7287.27	1.06246	
1912	ubiquitin-activating enzyme e1 (a1s9 protein). [source:swissprot;acc:p22314]	6858.84	7287.27	1.06246	
1913	calcium-binding mitochondrial carrier protein aralar1 (solute carrier family 25, member 12). [source:swissprot;acc:o75746]	6858.84	7287.27	1.06246	
1914	melanoma antigen recognized by t cells 2. [source:refseq;acc:nm_018194]	6858.84	7287.27	1.06246	
1915	5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [source:swissprot;acc:p13196]	6858.84	7287.27	1.06246	
1916	calcium-binding mitochondrial carrier protein aralar2 (solute carrier family 25, member 13) (citrin). [source:swissprot;acc:q9ujs0]	6858.84	7287.27	1.06246	
1917	acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [source:swissprot;acc:o14561]	6858.84	7287.27	1.06246	
1918	seven in absentia homolog 1. [source:refseq;acc:nm_003031]	5394.24	5730.73	1.06238	
1919	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [source:swissprot;acc:p46597]	5444.6	5783.95	1.06233	
1920	basic proline-rich peptide p-e (ib-9). [source:swissprot;acc:p02811]	6262.66	6652.85	1.0623	
1921	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [source:swissprot;acc:p10162]	6262.66	6652.85	1.0623	
1922	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [source:swissprot;acc:q16543]	5567.41	5914.05	1.06226	

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/