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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 844 to 893 of 3730 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
422	ras-related protein rab-37. [source:swissprot;acc:q96ax2]	1	260.193	240.287	1.08284	
423	cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [source:refseq;acc:nm_015247]	0	6073	5905	1.02845	
423	ras-related protein rab-26. [source:swissprot;acc:q9ulw5]	1	260.193	240.287	1.08284	
424	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [source:swissprot;acc:p42658]	0	9298.93	9562.48	1.02834	
424	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [source:swissprot;acc:p19387]	1	260.193	240.287	1.08284	
425	max protein. [source:swissprot;acc:p25912]	1	210.561	227.828	1.082	
425	scribble. [source:refseq;acc:nm_015356]	0	12719	12370.5	1.02817	
426	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [source:swissprot;acc:p12956]	0	9676.67	9412.67	1.02805	
426	dynactin 4. [source:refseq;acc:nm_032486]	1	252.253	233.142	1.08197	
427	apoptosis inhibitor fksg2. [source:swissprot;acc:q9hau6]	0	11582.7	11276.1	1.02719	
427	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [source:swissprot;acc:p19388]	1	259.525	239.977	1.08146	
428	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [source:refseq;acc:nm_024072]	1	234.808	253.852	1.0811	
428	cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [source:swissprot;acc:p33240]	0	12301.2	11982.7	1.02658	
429	60s ribosomal protein l14 (cag-isl 7). [source:swissprot;acc:p50914]	0	12631.5	12318.7	1.02539	
429	polymerase (rna) iii (dna directed) (32kd). [source:refseq;acc:nm_006467]	1	259.038	239.709	1.08064	
430	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [source:swissprot;acc:q15393]	0	11913.4	11621.7	1.0251	
430	u6 snrna-associated sm-like protein lsm5. [source:swissprot;acc:q9y4y9]	1	210.888	227.748	1.07995	
431	histone deacetylase 2 (hd2). [source:swissprot;acc:q92769]	0	9799.17	10043.7	1.02495	
431	trub pseudouridine (psi) synthase homolog 1. [source:refseq;acc:nm_139169]	1	255.113	236.245	1.07987	
432	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [source:swissprot;acc:q14249]	1	229.411	212.547	1.07934	
432	fibrillin 3. [source:refseq;acc:nm_032447]	0	953	930	1.02473	
433	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [source:swissprot;acc:o95831]	1	229.411	212.547	1.07934	
433	trinucleotide repeat containing 15. [source:refseq;acc:nm_015575]	0	754	772	1.02387	
434	elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [source:swissprot;acc:q14576]	0	10261.5	10028.5	1.02323	
434	t-box transcription factor tbx6 (t-box protein 6). [source:swissprot;acc:o95947]	1	229.411	212.547	1.07934	
435	histone h2b.q (h2b/q) (h2b-gl105). [source:swissprot;acc:q16778]	0	8574.04	8770.94	1.02296	
435	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [source:refseq;acc:nm_007195]	1	205.286	221.522	1.07909	
436	histone h2b.d (h2b/d). [source:swissprot;acc:q99877]	0	8574.19	8770.82	1.02293	
436	paxillin. [source:swissprot;acc:p49023]	1	205.286	221.522	1.07909	
437	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [source:swissprot;acc:q15642]	1	226.459	209.921	1.07878	
437	histone h2b.s (h2b/s). [source:swissprot;acc:p57053]	0	8574.66	8770.41	1.02283	
438	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [source:swissprot;acc:p16106]	0	7586.42	7759.36	1.0228	
438	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [source:swissprot;acc:p41227]	1	216.674	233.723	1.07869	
439	40s ribosomal protein s9. [source:swissprot;acc:p46781]	1	257.784	238.986	1.07866	
439	histone h2b. [source:refseq;acc:nm_175055]	0	8574.79	8770.3	1.0228	
440	highly expressed in cancer, rich in leucine heptad repeats. [source:refseq;acc:nm_006101]	1	249.983	231.802	1.07843	
440	histone h2b.e (h2b/e). [source:swissprot;acc:q99879]	0	8574.81	8770.28	1.0228	
441	grb2-related adaptor protein. [source:swissprot;acc:q13588]	1	207.222	223.457	1.07835	
441	histone h2b.c (h2b/c). [source:swissprot;acc:q99880]	0	8574.98	8770.14	1.02276	
442	e2a-pbx1-associated protein; putative 47 kda protein. [source:refseq;acc:nm_020140]	1	207.55	223.802	1.0783	
442	huntingtin-interacting protein hypa/fbp11 (fragment). [source:sptrembl;acc:o75404]	0	14247.3	14570.4	1.02268	
443	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]	1	207.539	223.79	1.0783	
443	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [source:refseq;acc:nm_030949]	0	8940.14	9141.6	1.02253	
444	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	0	14237.8	14556.7	1.0224	
444	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [source:refseq;acc:nm_020443]	1	207.549	223.801	1.0783	
445	histone h3.3 (h3.a) (h3.b) (h3.3q). [source:swissprot;acc:p06351]	0	7790.78	7965.06	1.02237	
445	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [source:refseq;acc:nm_014903]	1	207.549	223.801	1.0783	
446	dj1099d15.1 (putative dnaj protein). [source:sptrembl;acc:q9h4j9]	0	7790.78	7965.06	1.02237	
446	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [source:swissprot;acc:p29354]	1	207.785	224.049	1.07827	
447	protein hspc134 (protein cda04). [source:swissprot;acc:q9by43]	0	12808.8	12532.2	1.02207	

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/