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 430 to 479 of 3228 in total

Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
430	transcription factor dp-2 (e2f dimerization partner 2). [source:swissprot;acc:q14188]	3804.09	4379.37	1.15123	
431	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [source:refseq;acc:nm_022779]	3849.94	4431.36	1.15102	
432	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [source:swissprot;acc:o75439]	5244.71	6036.27	1.15093	
433	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [source:swissprot;acc:q10713]	5244.88	6036.38	1.15091	
434	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [source:swissprot;acc:p31930]	5246.38	6037.37	1.15077	
435	proline synthetase co-transcribed bacterial homolog protein. [source:swissprot;acc:o94903]	5233.86	6022.6	1.1507	
436	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [source:refseq;acc:nm_021069]	6230.94	7168.2	1.15042	
437	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [source:swissprot;acc:q9nq55]	3779.92	4348.48	1.15042	
438	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [source:swissprot;acc:o14497]	6252.58	7192.88	1.15039	
439	programmed cell death protein 6 (probable calcium-binding protein alg- 2). [source:swissprot;acc:o75340]	6252.58	7192.88	1.15039	
440	calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [source:swissprot;acc:p04632]	6251.91	7192.08	1.15038	
441	grancalcin. [source:swissprot;acc:p28676]	6251.96	7192.13	1.15038	
442	sorcin (22 kda protein) (cp-22) (v19). [source:swissprot;acc:p30626]	6251.99	7192.17	1.15038	
443	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [source:refseq;acc:nm_020732]	6252.27	7192.51	1.15038	
444	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [source:swissprot;acc:q99848]	3758.67	4322.87	1.15011	
445	ad24 protein. [source:refseq;acc:nm_022451]	3753.71	4315.95	1.14978	
446	nucleostemin; putative nucleotide binding protein, estradiol-induced. [source:refseq;acc:nm_014366]	3766.03	4329.37	1.14958	
447	pescadillo homolog 1. [source:swissprot;acc:o00541]	3751.14	4310.89	1.14922	
448	ponsin; sh3-domain protein 5 (ponsin). [source:refseq;acc:nm_015385]	6259.3	7190.91	1.14884	
449	wd-repeat protein 12 (ytm1 homolog). [source:swissprot;acc:q9gzl7]	3761.59	4319.69	1.14837	
450	l-myc-1 proto-oncogene protein. [source:swissprot;acc:p12524]	4889.21	5610.52	1.14753	
451	n-myc proto-oncogene protein. [source:swissprot;acc:p04198]	4889.71	5610.69	1.14745	
452	zinc finger-like protein 9. [source:refseq;acc:nm_033414]	3760.8	4315.06	1.14738	
453	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [source:swissprot;acc:q9umx9]	3760.8	4315.06	1.14738	
454	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [source:swissprot;acc:p36915]	3760.8	4315.06	1.14738	
455	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [source:swissprot;acc:q06546]	4890.51	5610.95	1.14731	
456	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [source:swissprot;acc:q06545]	4890.51	5610.95	1.14731	
457	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [source:swissprot;acc:o00217]	4890.51	5610.95	1.14731	
458	elongation of very long chain fatty acids protein 1 (cgi-88). [source:swissprot;acc:q9bw60]	4890.55	5610.96	1.14731	
459	myc proto-oncogene protein (c-myc). [source:swissprot;acc:p01106]	4892.16	5611.48	1.14704	
460	nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [source:swissprot;acc:p56182]	3790.11	4346.98	1.14693	
461	grb2-related adaptor protein. [source:swissprot;acc:q13588]	5986.65	6865.68	1.14683	
462	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]	11383.2	9926.61	1.14674	
463	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [source:swissprot;acc:q9nvp1]	3720.18	4264.46	1.1463	
464	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [source:swissprot;acc:q16576]	4858.96	5568.85	1.1461	
465	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [source:swissprot;acc:q01094]	3847.31	4409.22	1.14605	
466	transcription factor e2f2 (e2f-2). [source:swissprot;acc:q14209]	3847.31	4409.22	1.14605	
467	metastasis-associated protein mta1. [source:swissprot;acc:q13330]	4864.25	5573.62	1.14583	
468	chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [source:swissprot;acc:q09028]	4869.15	5578.02	1.14558	
469	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [source:swissprot;acc:p46087]	3831.17	4388.74	1.14554	
470	block of proliferation 1. [source:swissprot;acc:q14137]	3796.24	4348.59	1.1455	
471	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]	9649.61	11053.5	1.14549	
472	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [source:swissprot;acc:q9nya1]	9649.61	11053.5	1.14549	
473	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]	9649.61	11053.5	1.14549	
474	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]	9649.61	11053.5	1.14549	
475	map kinase-activated protein kinase 2 (ec 2.7.1.-) (mapk-activated protein kinase 2) (mapkap kinase 2) (mapkapk-2). [source:swissprot;acc:p49137]	9649.61	11053.5	1.14549	
476	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [source:swissprot;acc:q15825]	9649.61	11053.5	1.14549	
477	nitrogen fixation cluster-like. [source:refseq;acc:nm_014301]	9649.61	11053.5	1.14549	
478	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [source:swissprot;acc:q9y3m8]	9649.61	11053.5	1.14549	
479	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [source:swissprot;acc:q92502]	9649.61	11053.5	1.14549	

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/