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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 351 to 400 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
176	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [source:swissprot;acc:p00492]	Subtracted	10235.2	11830.8	1595.6	
176	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [source:swissprot;acc:q14582]	Divided	4456.93	5773.67	1.29544	
177	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [source:refseq;acc:nm_022075]	Subtracted	4110.14	5694.99	1584.85	
177	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [source:refseq;acc:nm_031300]	Divided	4457.06	5773.63	1.29539	
178	myosin vb (myosin 5b) (fragment). [source:swissprot;acc:q9ulv0]	Divided	21591.5	27904.5	1.29238	
178	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [source:refseq;acc:nm_002975]	Subtracted	10908.6	12491.8	1583.2	
179	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	Subtracted	4266.04	5843.51	1577.47	
179	myosin vc (myosin 5c). [source:swissprot;acc:q9nqx4]	Divided	21591.5	27904.5	1.29238	
180	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [source:swissprot;acc:o75596]	Subtracted	10872.4	12447	1574.6	
180	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [source:swissprot;acc:q9y4i1]	Divided	21591.5	27904.5	1.29238	
181	eukaryotic translation initiation factor 4 gamma, 3. [source:refseq;acc:nm_003760]	Divided	4068.56	5252.6	1.29102	
181	musashi 2 isoform a. [source:refseq;acc:nm_138962]	Subtracted	4241.57	5810.79	1569.22	
182	musashi 1. [source:refseq;acc:nm_002442]	Subtracted	4241.57	5810.79	1569.22	
182	rna-binding protein. [source:refseq;acc:nm_019027]	Divided	4069.83	5252.17	1.29051	
183	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [source:refseq;acc:nm_014576]	Divided	4069.83	5252.17	1.29051	
183	nuclear protein ukp68. [source:refseq;acc:nm_024824]	Subtracted	4241.57	5810.79	1569.22	
184	ns1-associated protein 1. [source:refseq;acc:nm_006372]	Divided	4069.83	5252.17	1.29051	
184	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [source:swissprot;acc:p05452]	Subtracted	10804.7	12363.6	1558.9	
185	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [source:swissprot;acc:o43390]	Divided	4069.83	5252.17	1.29051	
185	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [source:swissprot;acc:p30154]	Subtracted	4599.26	3058.57	1540.69	
186	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [source:swissprot;acc:q04637]	Divided	4071.1	5251.75	1.29001	
186	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [source:refseq;acc:nm_001457]	Subtracted	4366.44	5899.76	1533.32	
187	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [source:refseq;acc:nm_016316]	Subtracted	4366.44	5899.76	1533.32	
187	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [source:swissprot;acc:p43331]	Divided	4569.48	5885.79	1.28807	
188	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [source:swissprot;acc:q99873]	Subtracted	4366.44	5899.76	1533.32	
188	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [source:refseq;acc:nm_178862]	Divided	4571.89	5864.86	1.28281	
189	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [source:swissprot;acc:p46977]	Divided	4571.89	5864.86	1.28281	
189	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [source:swissprot;acc:q9nr22]	Subtracted	4366.44	5899.76	1533.32	
190	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [source:swissprot;acc:p39656]	Divided	4571.89	5864.86	1.28281	
190	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [source:swissprot;acc:p08621]	Subtracted	4366.44	5899.76	1533.32	
191	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	Subtracted	4366.44	5899.76	1533.32	
191	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [source:swissprot;acc:o75533]	Divided	4638.1	5923.4	1.27712	
192	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [source:swissprot;acc:p10398]	Divided	17757.5	14008	1.26767	
192	small glutamine rich protein with tetratricopeptide repeats 2. [source:refseq;acc:nm_019072]	Subtracted	10807.4	12338.5	1531.1	
193	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [source:swissprot;acc:p04049]	Divided	17756.5	14007.3	1.26766	
193	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [source:swissprot;acc:p30153]	Subtracted	4612.39	3093.6	1518.79	
194	cyclin g2. [source:swissprot;acc:q16589]	Divided	17738.6	13995.7	1.26743	
194	huntingtin interacting protein c. [source:refseq;acc:nm_012272]	Subtracted	4300.47	5807.72	1507.25	
195	cyclin g1 (cyclin g). [source:swissprot;acc:p51959]	Divided	17738.5	13995.6	1.26743	
195	protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8]	Subtracted	3074.57	4567.51	1492.94	
196	aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [source:swissprot;acc:p55087]	Subtracted	10640.2	12117.8	1477.6	
196	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [source:swissprot;acc:q16537]	Divided	17738.5	13995.7	1.26742	
197	aquaporin 5. [source:swissprot;acc:p55064]	Subtracted	10640	12117.6	1477.6	
197	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [source:swissprot;acc:q15172]	Divided	17738.5	13995.7	1.26742	
198	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [source:swissprot;acc:p41181]	Subtracted	10639.9	12117.4	1477.5	
198	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [source:swissprot;acc:p15056]	Divided	17710.9	13977.7	1.26708	
199	lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [source:swissprot;acc:p30301]	Subtracted	10639.8	12117.3	1477.5	
199	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [source:swissprot;acc:p05323]	Divided	4916.8	3888.18	1.26455	
200	aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [source:swissprot;acc:p29972]	Subtracted	10635.3	12111.4	1476.1	
200	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [source:swissprot;acc:p56945]	Divided	4808.79	6074.21	1.26315	

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/