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 2730 to 2779 of 6456 in total

Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1365	gamma adducin (adducin-like protein 70). [source:swissprot;acc:q9uey8]	Divided	5799.14	6255.04	1.07862	
1366	60s ribosomal protein l34, mitochondrial precursor (l34mt). [source:swissprot;acc:q9bq48]	Subtracted	5589.33	6047.9	458.57	
1366	megf11 protein. [source:refseq;acc:nm_032445]	Divided	5793.55	6248.79	1.07858	
1367	hexaprenyldihydroxybenzoate methyltransferase, mitochondrial precursor (ec 2.1.1.114) (dihydroxyhexaprenylbenzoate methyltransferase) (3,4- dihydroxy-5-hexaprenylbenzoate methyltransferase) (dhhb methyltransferase) (dhhb-mt) (dhhb-mtase). [source:swissprot;acc:q9nzj6]	Subtracted	6152.78	6610.46	457.68	
1367	megf10 protein. [source:refseq;acc:nm_032446]	Divided	5793.47	6248.71	1.07858	
1368	atp synthase coupling factor b, mitochondrial precursor. [source:swissprot;acc:q99766]	Subtracted	6152.78	6610.46	457.68	
1368	beta adducin (erythrocyte adducin beta subunit). [source:swissprot;acc:p35612]	Divided	5793.29	6248.51	1.07858	
1369	alpha adducin (erythrocyte adducin alpha subunit). [source:swissprot;acc:p35611]	Divided	5786.71	6241.16	1.07853	
1369	guanine deaminase (ec 3.5.4.3) (guanase) (guanine aminase) (guanine aminohydrolase) (gah) (p51-nedasin). [source:swissprot;acc:q9y2t3]	Subtracted	6152.78	6610.46	457.68	
1370	protein c20orf4 (protein cgi-23) (pro0225). [source:swissprot;acc:q9y312]	Subtracted	5815.14	6272.66	457.52	
1370	t-complex associated-testis-expressed 1-like (protein 91/23). [source:swissprot;acc:p51808]	Divided	10231.8	9487.34	1.07847	
1371	double-strand break repair protein mre11a (mre11 homolog 1). [source:swissprot;acc:p49959]	Divided	10231.8	9487.34	1.07847	
1371	glycogenin-1 (ec 2.4.1.186). [source:swissprot;acc:p46976]	Subtracted	6376.12	6833.59	457.47	
1372	adenosine kinase (ec 2.7.1.20) (ak) (adenosine 5'-phosphotransferase). [source:swissprot;acc:p55263]	Subtracted	6376.12	6833.59	457.47	
1372	lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [source:refseq;acc:nm_004664]	Divided	5743.45	6193.45	1.07835	
1373	mitogen-activated protein kinase 3 (ec 2.7.1.37) (extracellular signal-regulated kinase 1) (erk-1) (insulin-stimulated map2 kinase) (map kinase 1) (mapk 1) (p44-erk1) (ert2) (p44-mapk) (microtubule- associated protein-2 kinase). [source:swissprot;acc:p27361]	Divided	6079.85	6556.07	1.07833	
1373	protein x 0001. [source:refseq;acc:nm_016302]	Subtracted	6376.12	6833.59	457.47	
1374	glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [source:swissprot;acc:o15488]	Subtracted	6376.12	6833.59	457.47	
1374	ribosomal protein s6 kinase alpha 3 (ec 2.7.1.37) (s6k-alpha 3) (90 kda ribosomal protein s6 kinase 3) (p90-rsk 3) (ribosomal s6 kinase 2) (rsk-2) (pp90rsk2) (insulin-stimulated protein kinase 1) (ispk-1). [source:swissprot;acc:p51812]	Divided	6079.45	6555.4	1.07829	
1375	calcium/calmodulin-dependent protein kinase type ii gamma chain (ec 2.7.1.123) (cam-kinase ii gamma chain) (cam kinase ii gamma subunit) (camk-ii gamma subunit) (fragment). [source:swissprot;acc:q13555]	Divided	6079.45	6555.4	1.07829	
1375	mitotic checkpoint serine/threonine-protein kinase bub1 beta (ec 2.7.1.-) (hbubr1) (mad3/bub1-related protein kinase) (mitotic checkpoint kinase mad3l). [source:swissprot;acc:o60566]	Subtracted	5528.65	5985.58	456.93	
1376	calcium/calmodulin-dependent protein kinase type ii delta chain (ec 2.7.1.123) (cam-kinase ii delta chain) (cam kinase ii delta subunit) (camk-ii delta subunit). [source:swissprot;acc:q13557]	Divided	6079.46	6555.41	1.07829	
1376	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	Subtracted	5528.65	5985.58	456.93	
1377	mitogen-activated protein kinase kinase kinase 6 (ec 2.7.1.-). [source:swissprot;acc:o95382]	Divided	6079.46	6555.4	1.07829	
1377	transitional endoplasmic reticulum atpase (ter atpase) (15s mg(2+)- atpase p97 subunit) (valosin containing protein) (vcp) [contains: valosin]. [source:swissprot;acc:p55072]	Subtracted	6449.02	6905.56	456.54	
1378	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [source:swissprot;acc:p00480]	Subtracted	5783.9	6240.19	456.29	
1378	signal-induced proliferation-associated 1-like 1. [source:refseq;acc:nm_015556]	Divided	6079.45	6555.4	1.07829	
1379	gamma adducin (adducin-like protein 70). [source:swissprot;acc:q9uey8]	Subtracted	5799.14	6255.04	455.9	
1379	ribosomal protein s6 kinase alpha 1 (ec 2.7.1.37) (s6k-alpha 1) (90 kda ribosomal protein s6 kinase 1) (p90-rsk 1) (ribosomal s6 kinase 1) (rsk-1) (pp90rsk1). [source:swissprot;acc:q15418]	Divided	6079.46	6555.41	1.07829	
1380	atp-binding cassette, sub-family d, member 3 (70 kda peroxisomal membrane protein) (pmp70). [source:swissprot;acc:p28288]	Divided	6079.46	6555.41	1.07829	
1380	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [source:refseq;acc:nm_014281]	Subtracted	6364.01	6819.38	455.37	
1381	glutaryl-coa dehydrogenase, mitochondrial precursor (ec 1.3.99.7) (gcd). [source:swissprot;acc:q92947]	Divided	6079.46	6555.41	1.07829	
1381	multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [source:swissprot;acc:q13155]	Subtracted	6364.01	6819.38	455.37	
1382	histidine ammonia-lyase (ec 4.3.1.3) (histidase). [source:swissprot;acc:p42357]	Divided	6079.46	6555.41	1.07829	
1382	megf11 protein. [source:refseq;acc:nm_032445]	Subtracted	5793.55	6248.79	455.24	
1383	megf10 protein. [source:refseq;acc:nm_032446]	Subtracted	5793.47	6248.71	455.24	
1383	ribosomal protein s6 kinase alpha 6 (ec 2.7.1.37) (s6k-alpha 6) (90 kda ribosomal protein s6 kinase 6) (p90-rsk 6) (ribosomal s6 kinase 4) (rsk-4) (pp90rsk4). [source:swissprot;acc:q9uk32]	Divided	6079.45	6555.4	1.07829	
1384	ribosomal protein s6 kinase alpha 2 (ec 2.7.1.37) (s6k-alpha 2) (90 kda ribosomal protein s6 kinase 2) (p90-rsk 2) (ribosomal s6 kinase 3) (rsk-3) (pp90rsk3). [source:swissprot;acc:q15349]	Divided	6079.45	6555.4	1.07829	
1384	serine/threonine protein phosphatase 2b catalytic subunit, alpha isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, alpha isoform) (cam-prp catalytic subunit). [source:swissprot;acc:q08209]	Subtracted	5656.79	6112.02	455.23	
1385	beta adducin (erythrocyte adducin beta subunit). [source:swissprot;acc:p35612]	Subtracted	5793.29	6248.51	455.22	
1385	calcium/calmodulin-dependent protein kinase type ii alpha chain (ec 2.7.1.123) (cam-kinase ii alpha chain) (cam kinase ii alpha subunit) (camk-ii alpha subunit). [source:swissprot;acc:q9uqm7]	Divided	6079.45	6555.4	1.07829	
1386	calcium/calmodulin-dependent protein kinase type ii beta chain (ec 2.7.1.123) (cam-kinase ii beta chain) (cam kinase ii beta subunit) (camk-ii beta subunit). [source:swissprot;acc:q13554]	Divided	6079.46	6555.41	1.07829	
1386	serine/threonine protein phosphatase 4 (ec 3.1.3.16) (pp4) (protein phosphatase x) (pp-x). [source:swissprot;acc:p33172]	Subtracted	5438.66	5893.87	455.21	
1387	immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [source:swissprot;acc:p78318]	Subtracted	5438.66	5893.87	455.21	
1387	mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [source:swissprot;acc:q99683]	Divided	6079.46	6555.4	1.07829	
1388	lin-7 homolog b; lin-7b protein; likely ortholog of mouse lin-7b; mammalian lin-7 protein 2; likely orholog of mouse lin 7 homolog b (c. elegans). [source:refseq;acc:nm_022165]	Divided	5743.39	6192.94	1.07827	
1388	p protein (melanocyte-specific transporter protein). [source:swissprot;acc:q04671]	Subtracted	5656.8	6111.9	455.1	
1389	mitogen-activated protein kinase 1 (ec 2.7.1.37) (extracellular signal-regulated kinase 2) (erk-2) (mitogen-activated protein kinase 2) (map kinase 2) (mapk 2) (p42-mapk) (ert1). [source:swissprot;acc:p28482]	Divided	6079.13	6554.85	1.07825	
1389	serine/threonine protein phosphatase 2b catalytic subunit, beta isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, beta isoform) (cam-prp catalytic subunit). [source:swissprot;acc:p16299]	Subtracted	5656.81	6111.84	455.03	
1390	receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [source:swissprot;acc:q15303]	Divided	5743.36	6192.72	1.07824	

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/