MK5 Microarray Data

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	Hugo	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 401 to 450 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	red	green	network_comparison
401	RPA1	replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [swissprot;acc:p27694]	207.908	226.218	1.08807
402	RPA2	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927]
403	PDC	phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941]
404	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]
405	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	207.931	226.209	1.0879
406	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	265.634	244.304	1.08731
407	MRPS9	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	239.75	260.544	1.08673
408	CEBPZ	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	255.112	234.804	1.08649
409	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	241.045	261.874	1.08641
410	no value	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	233.376	253.539	1.0864
411	GTF2H1	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]
412	UQCRFSL1	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	240.788	261.416	1.08567
413	POLR1C	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	240.913	261.45	1.08525
414	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	232.431	252.238	1.08522
415	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	232.382	252.166	1.08514
416	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	240.6	261.041	1.08496
417	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	233.539	253.197	1.08417
418	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]
419	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]
420	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]
421	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	223.202	205.9	1.08403
422	RAB37	ras-related protein rab-37. [swissprot;acc:q96ax2]	240.287	260.193	1.08284
423	RAB26	ras-related protein rab-26. [swissprot;acc:q9ulw5]
424	POLR2C	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [swissprot;acc:p19387]
425	MAX	max protein. [swissprot;acc:p25912]	227.828	210.561	1.082
426	DCTN5	dynactin 4. [refseq;acc:nm_032486]	233.142	252.253	1.08197
427	POLR2E	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	239.977	259.525	1.08146
428	DDX54	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	253.852	234.808	1.0811
429	POLR3G	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	239.709	259.038	1.08064
430	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	227.748	210.888	1.07995
431	TRUB1	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	236.245	255.113	1.07987
432	ENDOG	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	212.547	229.411	1.07934
433	AIFM1	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]
434	TBX6	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]
435	POLI	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	221.522	205.286	1.07909
436	PXN	paxillin. [swissprot;acc:p49023]
437	TRIP10	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	209.921	226.459	1.07878
438	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	233.723	216.674	1.07869
439	RPS9	40s ribosomal protein s9. [swissprot;acc:p46781]	238.986	257.784	1.07866
440	NDC80	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	231.802	249.983	1.07843
441	GRAP	grb2-related adaptor protein. [swissprot;acc:q13588]	223.457	207.222	1.07835
442	ANKS1B	e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140]	223.802	207.55	1.0783
443	NAV2	neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117]	223.79	207.539
444	NAV1	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	223.801	207.549
445	NAV3	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]
446	GRB2	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [swissprot;acc:p29354]	224.049	207.785	1.07827
447	NEK2	serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [swissprot;acc:p51955]
448	MACF1	microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2]	228.468	246.338	1.07822
449	DST	bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001]	228.463	246.33	1.07821
450	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	235.94	218.837	1.07815

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Hugo is the HGNC identifier if it exists
- 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.