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 913 to 962 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
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]	Divided	4890.51	5610.95	1.14731	
457	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [source:swissprot;acc:q9y4z0]	Subtracted	4620.76	5501.94	881.18	
458	elongation of very long chain fatty acids protein 1 (cgi-88). [source:swissprot;acc:q9bw60]	Divided	4890.55	5610.96	1.14731	
458	grb2-related adaptor protein. [source:swissprot;acc:q13588]	Subtracted	5986.65	6865.68	879.03	
459	myc proto-oncogene protein (c-myc). [source:swissprot;acc:p01106]	Divided	4892.16	5611.48	1.14704	
459	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [source:swissprot;acc:o60508]	Subtracted	5082.66	5959.99	877.33	
460	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	Subtracted	1931.34	1057.39	873.95	
460	nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [source:swissprot;acc:p56182]	Divided	3790.11	4346.98	1.14693	
461	grb2-related adaptor protein. [source:swissprot;acc:q13588]	Divided	5986.65	6865.68	1.14683	
461	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [source:swissprot;acc:p49810]	Subtracted	2353.63	3225.65	872.02	
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]	Divided	11383.2	9926.61	1.14674	
462	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [source:swissprot;acc:p34991]	Subtracted	2353.63	3225.65	872.02	
463	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [source:swissprot;acc:q9nvp1]	Divided	3720.18	4264.46	1.1463	
463	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [source:refseq;acc:nm_018315]	Subtracted	2353.63	3225.65	872.02	
464	cullin homolog 2 (cul-2). [source:swissprot;acc:q13617]	Subtracted	2353.63	3225.65	872.02	
464	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [source:swissprot;acc:q16576]	Divided	4858.96	5568.85	1.1461	
465	presenilin 1 (ps-1) (s182 protein). [source:swissprot;acc:p49768]	Subtracted	2353.63	3225.65	872.02	
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]	Divided	3847.31	4409.22	1.14605	
466	cullin homolog 1 (cul-1). [source:swissprot;acc:q13616]	Subtracted	2353.63	3225.65	872.02	
466	transcription factor e2f2 (e2f-2). [source:swissprot;acc:q14209]	Divided	3847.31	4409.22	1.14605	
467	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	Subtracted	1926.69	1056.02	870.67	
467	metastasis-associated protein mta1. [source:swissprot;acc:q13330]	Divided	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]	Divided	4869.15	5578.02	1.14558	
468	ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [source:swissprot;acc:p51965]	Subtracted	11143.5	10276.3	867.2	
469	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [source:swissprot;acc:p46087]	Divided	3831.17	4388.74	1.14554	
469	ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [source:refseq;acc:nm_006357]	Subtracted	11143.5	10276.3	867.2	
470	block of proliferation 1. [source:swissprot;acc:q14137]	Divided	3796.24	4348.59	1.1455	
470	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [source:swissprot;acc:q13573]	Subtracted	5367.04	6233.12	866.08	
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]	Divided	9649.61	11053.5	1.14549	
471	neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [source:refseq;acc:nm_145117]	Subtracted	5980.15	6843.48	863.33	
472	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [source:swissprot;acc:q12904]	Subtracted	5246.01	6109.31	863.3	
472	sphingosine kinase 1 (ec 2.7.1.-) (sk 1) (spk 1). [source:swissprot;acc:q9nya1]	Divided	9649.61	11053.5	1.14549	
473	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [source:refseq;acc:nm_014903]	Subtracted	5979.95	6842.78	862.83	
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]	Divided	9649.61	11053.5	1.14549	
474	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [source:refseq;acc:nm_020443]	Subtracted	5979.94	6842.76	862.82	
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]	Divided	9649.61	11053.5	1.14549	
475	e2a-pbx1-associated protein; putative 47 kda protein. [source:refseq;acc:nm_020140]	Subtracted	5979.93	6842.72	862.79	
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]	Divided	9649.61	11053.5	1.14549	
476	neuronal acetylcholine receptor protein, alpha-6 chain precursor. [source:swissprot;acc:q15825]	Divided	9649.61	11053.5	1.14549	
476	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [source:swissprot;acc:o43464]	Subtracted	5067.02	5926.46	859.44	
477	nitrogen fixation cluster-like. [source:refseq;acc:nm_014301]	Divided	9649.61	11053.5	1.14549	
477	probable serine protease htra4 precursor (ec 3.4.21.-). [source:swissprot;acc:p83105]	Subtracted	5067	5926.17	859.17	
478	probable serine protease htra3 precursor (ec 3.4.21.-). [source:swissprot;acc:p83110]	Subtracted	5066.99	5926.1	859.11	
478	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [source:swissprot;acc:q9y3m8]	Divided	9649.61	11053.5	1.14549	
479	ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [source:refseq;acc:nm_016304]	Subtracted	7170.83	8029.64	858.81	
479	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [source:swissprot;acc:q92502]	Divided	9649.61	11053.5	1.14549	
480	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [source:swissprot;acc:q15822]	Divided	9649.61	11053.5	1.14549	
480	serine protease htra1 precursor (ec 3.4.21.-) (l56). [source:swissprot;acc:q92743]	Subtracted	5066.93	5925.38	858.45	
481	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [source:refseq;acc:nm_005872]	Subtracted	5493.1	6350.19	857.09	
481	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [source:refseq;acc:nm_004635]	Divided	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/