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

Results: HTML CSV LaTeX

Showing element 443 to 492 of 6456 in total

Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
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	
232	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [source:sptrembl;acc:q9h430]	Divided	9035	7279.6	1.24114	
232	udp-n-acetylglucosamine--dolichyl-phosphate n- acetylglucosaminephosphotransferase (ec 2.7.8.15) (gpt) (g1pt) (n-acetylglucosamine-1-phosphate transferase) (glcnac-1-p transferase). [source:swissprot;acc:q9h3h5]	Subtracted	9649.61	11053.5	1403.89	
233	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [source:swissprot;acc:q9ukx3]	Divided	9035	7279.6	1.24114	
233	rho-gtpase-activating protein 7 (rho-type gtpase-activating protein 7) (deleted in liver cancer 1 protein) (dlc-1) (hp protein) (star-related lipid transfer protein 12) (stard12) (start domain-containing protein 12). [source:swissprot;acc:q96qb1]	Subtracted	9649.61	11053.5	1403.89	
234	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [source:swissprot;acc:p49137]	Subtracted	9649.61	11053.5	1403.89	
234	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [source:refseq;acc:nm_012424]	Divided	5181.2	6410.58	1.23728	
235	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [source:swissprot;acc:q15825]	Subtracted	9649.61	11053.5	1403.89	
235	ribosomal protein s6 kinase-like 1. [source:refseq;acc:nm_031464]	Divided	5181.2	6410.58	1.23728	
236	nitrogen fixation cluster-like. [source:refseq;acc:nm_014301]	Subtracted	9649.61	11053.5	1403.89	
236	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [source:swissprot;acc:o14834]	Divided	4723.53	5828.46	1.23392	
237	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [source:swissprot;acc:q9y3m8]	Subtracted	9649.61	11053.5	1403.89	
237	u6 snrna-associated sm-like protein lsm5. [source:swissprot;acc:q9y4y9]	Divided	4567.04	5631.2	1.23301	
238	protein phosphatase 1, regulatory subunit 7; sds22. [source:refseq;acc:nm_002712]	Divided	27642.5	22440.4	1.23182	
238	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [source:swissprot;acc:q92502]	Subtracted	9649.61	11053.5	1403.89	
239	carboxypeptidase b precursor. [source:refseq;acc:nm_020361]	Divided	7711.38	6265.8	1.23071	
239	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [source:swissprot;acc:q15822]	Subtracted	9649.61	11053.5	1403.89	
240	mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [source:swissprot;acc:p15088]	Divided	7711.36	6265.79	1.23071	
240	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [source:refseq;acc:nm_004635]	Subtracted	9649.61	11053.5	1403.89	
241	mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [source:swissprot;acc:q16539]	Subtracted	9649.61	11053.5	1403.89	
241	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]	Divided	7711.31	6265.76	1.23071	
242	max protein. [source:swissprot;acc:p25912]	Divided	4640.26	5704.87	1.22943	
242	neuronal acetylcholine receptor protein, alpha-4 chain precursor. [source:swissprot;acc:p43681]	Subtracted	9649.61	11053.5	1403.89	
243	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [source:refseq;acc:nm_004839]	Divided	4246.95	5208.98	1.22652	
243	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [source:swissprot;acc:p32297]	Subtracted	9649.61	11053.5	1403.89	
244	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [source:swissprot;acc:q9nra0]	Subtracted	9649.61	11053.5	1403.89	
244	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [source:swissprot;acc:q99807]	Divided	4250.14	5211.25	1.22614	
245	homer, neuronal immediate early gene, 1b. [source:refseq;acc:nm_004272]	Divided	4251.65	5212.33	1.22595	
245	methyltransferase like 2. [source:refseq;acc:nm_018396]	Subtracted	13241.4	11864	1377.4	
246	cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [source:swissprot;acc:q15763]	Subtracted	13241.4	11864	1377.4	
246	homer, neuronal immediate early gene, 3. [source:refseq;acc:nm_004838]	Divided	4252.66	5213.05	1.22583	

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/