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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

Navigation/Query Panel:
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	Hugo	Value Type	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 808 to 857 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
404	RAD52	dna repair protein rad52 homolog. [swissprot;acc:p43351]	Divided	207.908	226.218	1.08807
405	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]		207.931	226.209	1.0879
	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Subtracted	65.4586	83.0461	17.5875
406	no value	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Divided	265.634	244.304	1.08731
	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	Subtracted	237.109	254.667	17.558
407	MRPS9	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	Divided	239.75	260.544	1.08673
	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Subtracted	237.109	254.667	17.558
408	CEBPZ	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Divided	255.112	234.804	1.08649
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Subtracted	237.109	254.667	17.558
409	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Divided	241.045	261.874	1.08641
	RUNX2	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	Subtracted	237.109	254.667	17.558
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]	Divided	233.376	253.539	1.0864
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	Subtracted	237.109	254.667	17.558
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]	Divided	233.376	253.539	1.0864
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Subtracted	237.109	254.667	17.558
412	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]		251.926	234.547	17.379
	UQCRFSL1	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	Divided	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
	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Subtracted	223.202	205.9	17.302
414	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	Divided	232.431	252.238	1.08522
	MAX	max protein. [swissprot;acc:p25912]	Subtracted	227.828	210.561	17.267
415	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	Divided	232.382	252.166	1.08514
	TAF7	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Subtracted	200.586	183.423	17.163
416	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	Divided	240.6	261.041	1.08496
	TAF7L	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	Subtracted	200.791	183.66	17.131
417	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Divided	233.539	253.197	1.08417
	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	235.94	218.837	17.103
418	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]		233.723	216.674	17.049
	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Divided	233.539	253.197	1.08417
419	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]
	SRP9	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	Subtracted	235.922	218.925	16.997
420	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Divided	233.539	253.197	1.08417
	CYC1	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	Subtracted	238.704	255.68	16.976
421	ARHGAP26	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]
	TFIP11	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	Divided	223.202	205.9	1.08403
422	RAB37	ras-related protein rab-37. [swissprot;acc:q96ax2]		240.287	260.193	1.08284
	RGN	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	Subtracted	238.704	255.68	16.976
423	OPHN1	oligophrenin 1. [swissprot;acc:o60890]
	RAB26	ras-related protein rab-26. [swissprot;acc:q9ulw5]	Divided	240.287	260.193	1.08284
424	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Subtracted	251.83	234.951	16.879
	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]	Divided	240.287	260.193	1.08284
425	ENDOG	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	Subtracted	212.547	229.411	16.864
	MAX	max protein. [swissprot;acc:p25912]	Divided	227.828	210.561	1.082
426	AIFM1	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]	Subtracted	212.547	229.411	16.864
	DCTN5	dynactin 4. [refseq;acc:nm_032486]	Divided	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
	TBX6	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]	Subtracted	212.547	229.411	16.864
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]	Divided	253.852	234.808	1.0811
	LSM5	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	Subtracted	227.748	210.888	16.86
429	EBNA1BP2	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		251.344	234.514	16.83

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.