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	description	Hugo	Value Type	Network Comparison Type	Interaction Map	Filtered	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	description	Hugo	Network Comparison Type	red	green	network_comparison
365	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	FCER2	Subtracted	233.539	253.197	19.658
366	40s ribosomal protein s5. [swissprot;acc:p46782]	RPS5	Divided	242.473	265.756	1.09602
	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	CD209	Subtracted	233.539	253.197	19.658
367	dipeptidylpeptidase 9; dipeptidyl peptidase 9; dipeptidyl peptidase iv-related protein-2. [refseq;acc:nm_139159]	DPP9		218.827	238.407	19.58
	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	HNRPM	Divided	234.146	256.627	1.09601
368	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	DPP8	Subtracted	218.827	238.407	19.58
	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	PUS1	Divided	242.66	265.715	1.09501
369	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	MRPL12		242.159	265.104	1.09475
	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	POLR2E	Subtracted	239.977	259.525	19.548
370	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	ITGB1BP3		218.818	238.358	19.54
	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	NUDT12	Divided	242.159	265.104	1.09475
371	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	SLC15A1	Subtracted	186.172	166.661	19.511
	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	RPS6KC1	Divided	186.52	170.42	1.09447
372	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	POLR3G	Subtracted	239.709	259.038	19.329
	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	no value	Divided	186.52	170.42	1.09447
373	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	MRPL11		242.37	265.255	1.09442
	dynactin 4. [refseq;acc:nm_032486]	DCTN5	Subtracted	233.142	252.253	19.111
374	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	CHRNA7		248.152	267.226	19.074
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	Divided	267.208	244.168	1.09436
375	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]	ADCY6	Subtracted	248.152	267.226	19.074
	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	POLR3A	Divided	242.686	265.516	1.09407
376	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	ADCY5	Subtracted	248.152	267.226	19.074
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	DDX56	Divided	257.017	234.945	1.09395
377	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	POLR1A		242.691	265.481	1.09391
	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	LRRC15	Subtracted	248.152	267.226	19.074
378	60s ribosomal protein l30. [swissprot;acc:p04645]	RPL30	Divided	242.593	265.365	1.09387
	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	FEM1B	Subtracted	248.152	267.226	19.074
379	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	AK2	Divided	241.509	264.163	1.0938
	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	LRRC3	Subtracted	248.152	267.226	19.074
380	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	LAMC1
	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	no value	Divided	242.109	264.79	1.09368
381	thymic stromal co-transporter. [refseq;acc:nm_033051]	SLC46A2	Subtracted	248.152	267.226	19.074
	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	TAF7	Divided	200.586	183.423	1.09357
382	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	DDX54	Subtracted	253.852	234.808	19.044
	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]	TAF7L	Divided	200.791	183.66	1.09328
383	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	RBM39		237.862	217.739	1.09242
	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	TRUB1	Subtracted	236.245	255.113	18.868
384	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	no value		227.575	208.756	18.819
	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]	E2F1	Divided	266.421	244.236	1.09083
385	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	SNRPF	Subtracted	227.575	208.756	18.819
	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	E2F2	Divided	266.421	244.236	1.09083
386	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	RPS14		242.238	264.11	1.09029
	40s ribosomal protein s9. [swissprot;acc:p46781]	RPS9	Subtracted	238.986	257.784	18.798
387	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	no value	Divided	242.238	264.11	1.09029
	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	ATG4A	Subtracted	56.6768	75.3531	18.6763
388	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	MAP1LC3B		56.7244	75.3948	18.6704
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	no value	Divided	227.575	208.756	1.09015
389	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	MAP1LC3A	Subtracted	56.7252	75.3954	18.6702
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	SNRPF	Divided	227.575	208.756	1.09015
390	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	MRPL13		241.828	263.62	1.09011

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.