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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 462 to 511 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
231	tigger transposable element derived 1; jerky (mouse) homolog-like. [source:refseq;acc:nm_145702]	0	12364.8	11207.9	1.10322	
232	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [source:swissprot;acc:q16719]	0	12394.7	11240.2	1.10271	
232	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [source:swissprot;acc:q16527]	1	239.336	267.879	1.11926	
233	60s acidic ribosomal protein p1. [source:swissprot;acc:p05386]	0	9586.97	10560	1.1015	
233	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [source:swissprot;acc:p50461]	1	239.32	267.842	1.11918	
234	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [source:swissprot;acc:q9nrg0]	1	287.41	256.835	1.11905	
234	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [source:swissprot;acc:p15884]	0	16614	18296	1.10124	
235	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [source:swissprot;acc:p04720]	0	14554.5	16027.9	1.10123	
235	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [source:swissprot;acc:p00439]	1	227.357	254.15	1.11785	
236	pp3111 protein. [source:refseq;acc:nm_022156]	1	227.357	254.15	1.11785	
236	protein phosphatase inhibitor 2 (ipp-2). [source:swissprot;acc:p41236]	0	15245.4	16788.5	1.10122	
237	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [source:swissprot;acc:o95340]	0	9984	9067	1.10114	
237	syntaxin 18. [source:swissprot;acc:q9p2w9]	1	227.357	254.15	1.11785	
238	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [source:swissprot;acc:p33551]	0	12677.7	13941.7	1.0997	
238	rd protein. [source:swissprot;acc:p18615]	1	227.357	254.15	1.11785	
239	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [source:swissprot;acc:p78417]	1	227.357	254.15	1.11785	
239	mto1 protein homolog (cgi-02). [source:swissprot;acc:q9y2z2]	0	8907.41	9795.36	1.09969	
240	androgen-induced 1; cgi-103 protein; androgen induced protein. [source:refseq;acc:nm_016108]	1	227.357	254.15	1.11785	
240	methyltransferase like 2. [source:refseq;acc:nm_018396]	0	17946	16326	1.09923	
241	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p24539]	1	227.357	254.15	1.11785	
241	secreted modular calcium-binding protein 1. [source:refseq;acc:nm_022137]	0	14003.7	12743.3	1.09891	
242	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446]	0	15260.6	13895.8	1.09822	
242	j domain containing protein 1. [source:swissprot;acc:q9ukb3]	1	227.357	254.15	1.11785	
243	polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [source:swissprot;acc:q9h361]	0	1251	1373	1.09752	
243	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [source:swissprot;acc:q9y5w8]	1	227.357	254.15	1.11785	
244	ba127l20.1 (novel glutathione-s-transferase). [source:sptrembl;acc:q9h4y5]	1	227.357	254.15	1.11785	
244	keratin associated protein 9.2. [source:refseq;acc:nm_031961]	0	10551.1	11579.9	1.09751	
245	cell division protein kinase 3 (ec 2.7.1.-). [source:swissprot;acc:q00526]	0	11867.6	13019	1.09702	
245	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [source:swissprot;acc:p43331]	1	226.109	202.333	1.11751	
246	eukaryotic translation initiation factor 4 gamma, 3. [source:refseq;acc:nm_003760]	1	237.312	212.363	1.11748	
246	keratin associated protein 4.3 (fragment). [source:sptrembl;acc:q9byr4]	0	10551.6	11573.7	1.09687	
247	keratin associated protein 2-4; keratin associated protein 2.4. [source:refseq;acc:nm_033184]	0	10551.6	11573.7	1.09687	
247	rna-binding protein. [source:refseq;acc:nm_019027]	1	237.302	212.41	1.11719	
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [source:refseq;acc:nm_014576]	1	237.302	212.41	1.11719	
248	keratin associated protein 1.5. [source:refseq;acc:nm_031957]	0	10551.6	11573.7	1.09687	
249	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [source:swissprot;acc:p26371]	0	10551.6	11573.7	1.09687	
249	ns1-associated protein 1. [source:refseq;acc:nm_006372]	1	237.302	212.41	1.11719	
250	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [source:swissprot;acc:o43390]	1	237.302	212.41	1.11719	
250	keratin associated protein 1-3; keratin associated protein 1.3. [source:refseq;acc:nm_030966]	0	10551.6	11573.7	1.09687	
251	keratin associated protein 4-10; keratin associated protein 4.10. [source:refseq;acc:nm_033060]	0	10551.6	11573.6	1.09686	
251	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [source:swissprot;acc:p46059]	1	186.172	166.661	1.11707	
252	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [source:swissprot;acc:q04637]	1	237.292	212.457	1.11689	
252	keratin associated protein 4-14; keratin associated protein 4.14. [source:refseq;acc:nm_033059]	0	10551.6	11573.5	1.09685	
253	keratin associated protein 4.9 (fragment). [source:sptrembl;acc:q9byq8]	0	10551.6	11573.5	1.09685	
253	mad protein (max dimerizer). [source:swissprot;acc:q05195]	1	228	204.333	1.11583	
254	keratin associated protein 4-12; keratin associated protein 4.12. [source:refseq;acc:nm_031854]	0	10551.6	11573.5	1.09685	
254	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [source:refseq;acc:nm_178862]	1	200.691	179.88	1.11569	
255	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [source:swissprot;acc:p46977]	1	200.691	179.88	1.11569	
255	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [source:swissprot;acc:p59095]	0	10551.6	11573.5	1.09685	
256	espin. [source:refseq;acc:nm_031475]	0	10551.6	11573.4	1.09684	

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/