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

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

Results: HTML CSV LaTeX

Showing element 730 to 779 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
365	MRPL36	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	Divided	242.744	266.07	1.09609
366	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Subtracted	233.539	253.197	19.658
	RPS5	40s ribosomal protein s5. [swissprot;acc:p46782]	Divided	242.473	265.756	1.09602
367	DPP9	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	Subtracted	218.827	238.407	19.58
	HNRPM	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	Divided	234.146	256.627	1.09601
368	DPP8	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	Subtracted	218.827	238.407	19.58
	PUS1	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	Divided	242.66	265.715	1.09501
369	MRPL12	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]		242.159	265.104	1.09475
	POLR2E	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	Subtracted	239.977	259.525	19.548
370	ITGB1BP3	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]		218.818	238.358	19.54
	NUDT12	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	Divided	242.159	265.104	1.09475
371	RPS6KC1	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]		186.52	170.42	1.09447
	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	Subtracted	186.172	166.661	19.511
372	no value	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	Divided	186.52	170.42	1.09447
	POLR3G	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	Subtracted	239.709	259.038	19.329
373	DCTN5	dynactin 4. [refseq;acc:nm_032486]		233.142	252.253	19.111
	MRPL11	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	Divided	242.37	265.255	1.09442
374	CHRNA7	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	Subtracted	248.152	267.226	19.074
	TFDP2	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	Divided	267.208	244.168	1.09436
375	ADCY6	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]	Subtracted	248.152	267.226	19.074
	POLR3A	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	Divided	242.686	265.516	1.09407
376	ADCY5	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	Subtracted	248.152	267.226	19.074
	DDX56	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	Divided	257.017	234.945	1.09395
377	LRRC15	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	Subtracted	248.152	267.226	19.074
	POLR1A	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	Divided	242.691	265.481	1.09391
378	FEM1B	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	Subtracted	248.152	267.226	19.074
	RPL30	60s ribosomal protein l30. [swissprot;acc:p04645]	Divided	242.593	265.365	1.09387
379	AK2	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]		241.509	264.163	1.0938
	LRRC3	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	Subtracted	248.152	267.226	19.074
380	no value	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	Divided	242.109	264.79	1.09368
	LAMC1	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	Subtracted	248.152	267.226	19.074
381	SLC46A2	thymic stromal co-transporter. [refseq;acc:nm_033051]
	TAF7	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Divided	200.586	183.423	1.09357
382	DDX54	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Subtracted	253.852	234.808	19.044
	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]	Divided	200.791	183.66	1.09328
383	RBM39	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]		237.862	217.739	1.09242
	TRUB1	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	Subtracted	236.245	255.113	18.868
384	no value	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]		227.575	208.756	18.819
	E2F1	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	Divided	266.421	244.236	1.09083
385	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]
	SNRPF	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Subtracted	227.575	208.756	18.819
386	RPS14	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	Divided	242.238	264.11	1.09029
	RPS9	40s ribosomal protein s9. [swissprot;acc:p46781]	Subtracted	238.986	257.784	18.798
387	no value	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	Divided	242.238	264.11	1.09029
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	56.6768	75.3531	18.6763
388	no value	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Divided	227.575	208.756	1.09015
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Subtracted	56.7244	75.3948	18.6704
389	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]		56.7252	75.3954	18.6702
	SNRPF	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Divided	227.575	208.756	1.09015
390	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Subtracted	56.7841	75.447	18.6629

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.