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 413 to 462 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
207	calsyntenin-2 precursor. [source:swissprot;acc:q9h4d0]	Subtracted	10600.3	12065.2	1464.9	
207	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [source:swissprot;acc:q15393]	Divided	4771.21	5961.43	1.24946	
208	calsyntenin-3 precursor. [source:swissprot;acc:q9bqt9]	Subtracted	10599.9	12064.7	1464.8	
208	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	Divided	4068.78	5082.18	1.24907	
209	ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [source:swissprot;acc:o60858]	Subtracted	11383.2	9926.61	1456.59	
209	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	Divided	4068.78	5082.18	1.24907	
210	luc7-like 2; cgi-74 protein; cgi-59 protein. [source:refseq;acc:nm_016019]	Subtracted	4355.61	5810.82	1455.21	
210	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	Divided	4068.82	5082.21	1.24906	
211	luc7-like; sarcoplasmic reticulum protein luc7b1. [source:refseq;acc:nm_018032]	Subtracted	4358.13	5811.49	1453.36	
211	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	Divided	4068.91	5082.27	1.24905	
212	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [source:swissprot;acc:q92994]	Divided	4446.72	5553.79	1.24896	
212	wiskott-aldrich syndrome protein (wasp). [source:swissprot;acc:p42768]	Subtracted	6416.68	7865.15	1448.47	
213	carboxypeptidase b precursor. [source:refseq;acc:nm_020361]	Subtracted	7711.38	6265.8	1445.58	
213	nucleolar protein family a, member 1; gar1 protein. [source:refseq;acc:nm_018983]	Divided	4446.72	5553.79	1.24896	
214	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [source:swissprot;acc:p15088]	Subtracted	7711.36	6265.79	1445.57	
214	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	Divided	4074.83	5086.49	1.24827	
215	plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [source:refseq;acc:nm_001872]	Subtracted	7711.31	6265.76	1445.55	
215	transforming protein p21a (k-ras 2a) (ki-ras) (c-k-ras). [source:swissprot;acc:p01116]	Divided	16074	12888.4	1.24717	
216	enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [source:swissprot;acc:p30084]	Subtracted	10067.9	11511	1443.1	
216	leucine-rich repeat protein shoc-2 (ras-binding protein sur-8). [source:swissprot;acc:q9uq13]	Divided	16071.6	12886.8	1.24714	
217	proto-oncogene c-crk (p38) (adapter molecule crk). [source:swissprot;acc:p46108]	Subtracted	6417.18	7859.6	1442.42	
217	ral guanine nucleotide dissociation stimulator-like 2 (ralgds-like factor) (ras-associated protein rab2l). [source:swissprot;acc:o15211]	Divided	16071.6	12886.8	1.24714	
218	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [source:swissprot;acc:p12931]	Subtracted	6417.18	7859.6	1442.42	
218	transforming protein p21/h-ras-1 (c-h-ras). [source:swissprot;acc:p01112]	Divided	16070.4	12886	1.24712	
219	transforming protein n-ras. [source:swissprot;acc:p01111]	Divided	16069.8	12885.6	1.24711	
219	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [source:swissprot;acc:p08631]	Subtracted	6417.18	7859.6	1442.42	
220	crk-like protein. [source:swissprot;acc:p46109]	Subtracted	6417.18	7859.6	1442.42	
220	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [source:swissprot;acc:o60476]	Divided	41482.5	33356.5	1.24361	
221	cytohesin 1 (sec7 homolog b2-1). [source:swissprot;acc:q15438]	Divided	41482.5	33356.5	1.24361	
221	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [source:swissprot;acc:p06241]	Subtracted	6417.18	7859.6	1442.42	
222	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418]	Divided	41482.5	33356.5	1.24361	
222	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [source:swissprot;acc:p09769]	Subtracted	6417.18	7859.6	1442.42	
223	cytohesin 4. [source:swissprot;acc:q9uia0]	Divided	41482.5	33356.5	1.24361	
223	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [source:swissprot;acc:p42684]	Subtracted	6417.18	7859.59	1442.41	
224	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739]	Divided	41482.5	33356.5	1.24361	
224	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [source:swissprot;acc:p00519]	Subtracted	6417.18	7859.59	1442.41	
225	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [source:swissprot;acc:o75791]	Subtracted	6417.19	7859.51	1442.32	
225	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [source:swissprot;acc:p13533]	Divided	9035	7279.6	1.24114	
226	ccaat displacement protein (cdp) (cut-like 1). [source:swissprot;acc:p39880]	Subtracted	6417.31	7858.12	1440.81	
226	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [source:swissprot;acc:q9y623]	Divided	9035	7279.6	1.24114	
227	homeobox protein cux-2 (cut-like 2) (fragment). [source:swissprot;acc:o14529]	Subtracted	6417.33	7857.93	1440.6	
227	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [source:swissprot;acc:p13535]	Divided	9035	7279.6	1.24114	
228	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [source:swissprot;acc:q9ukx2]	Divided	9035	7279.6	1.24114	
228	neural wiskott-aldrich syndrome protein (n-wasp). [source:swissprot;acc:o00401]	Subtracted	6417.81	7852.52	1434.71	
229	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [source:swissprot;acc:p11055]	Divided	9035	7279.6	1.24114	
229	small glutamine-rich tetratricopeptide repeat-containing protein (vpu-binding protein) (ubp). [source:swissprot;acc:o43765]	Subtracted	10434.4	11846.2	1411.8	
230	mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [source:swissprot;acc:p53778]	Subtracted	9649.61	11053.5	1403.89	
230	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [source:swissprot;acc:p12882]	Divided	9035	7279.6	1.24114	
231	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [source:swissprot;acc:p12883]	Divided	9035	7279.6	1.24114	
231	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [source:swissprot;acc:q9nya1]	Subtracted	9649.61	11053.5	1403.89	

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/