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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1108 to 1157 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
554	t54 protein. [swissprot;acc:q92917]	Subtracted	226.3	212.38	13.92
555	cbf1 interacting corepressor. [refseq;acc:nm_004882]		227.86	213.945	13.915
	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	Divided	207.26	194.346	1.06645
556	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]		207.27	194.368	1.06638
	evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]	Subtracted	227.86	213.945	13.915
557	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	Divided	207.272	194.371	1.06637
	shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	Subtracted	216.557	230.362	13.805
558	tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886]		248.994	235.255	13.739
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Divided	135.087	144.041	1.06628
559	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]		207.309	194.452	1.06612
	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	Subtracted	216.72	230.439	13.719
560	son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889]	Divided	205.74	193.021	1.06589
	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	Subtracted	232.118	218.406	13.712
561	son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890]	Divided	205.89	193.183	1.06578
	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333]	Subtracted	228.215	214.546	13.669
562	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073]		224.606	210.944	13.662
	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Divided	220.744	207.121	1.06577
563	calcyphosine. [swissprot;acc:q13938]
	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]	Subtracted	224.606	210.944	13.662
564	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Divided	220.744	207.121	1.06577
	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Subtracted			13.623
565	calcyphosine. [swissprot;acc:q13938]
	sedlin. [swissprot;acc:o14582]	Divided	129.219	121.261	1.06563
566	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Subtracted	220.744	207.121	13.623
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	Divided	129.219	121.261	1.06563
567	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	Subtracted	228.639	242.258	13.619
	bet3 homolog. [swissprot;acc:o43617]	Divided	129.219	121.261	1.06563
568	putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [swissprot;acc:o60231]		226.3	212.38	1.06554
	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	Subtracted	228.639	242.258	13.619
569	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]
	t54 protein. [swissprot;acc:q92917]	Divided	226.3	212.38	1.06554
570	sorting nexin 17. [swissprot;acc:q15036]	Subtracted	228.639	242.258	13.619
	splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519]	Divided	229.709	215.631	1.06529
571	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]		238.529	254.099	1.06528
	preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387]	Subtracted	221.807	208.264	13.543
572	cbf1 interacting corepressor. [refseq;acc:nm_004882]	Divided	227.86	213.945	1.06504
	dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]	Subtracted	221.807	208.264	13.543
573	autoantigen ngp-1. [swissprot;acc:q13823]		250.302	236.817	13.485
	evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]	Divided	227.86	213.945	1.06504
574	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	Subtracted	237.554	250.823	13.269
	preimplantation protein 3; likely ortholog of preimplantation protein 3. [refseq;acc:nm_015387]	Divided	221.807	208.264	1.06503
575	dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]
	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	Subtracted	223.282	210.136	13.146
576	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	Divided	235.18	250.419	1.0648
	dna-directed rna polymerase ii 19 kda polypeptide (ec 2.7.7.6) (rpb7). [swissprot;acc:p52433]	Subtracted	232.469	245.613	13.144
577	60s ribosomal protein l15. [swissprot;acc:p39030]		217.862	230.978	13.116
	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073]	Divided	224.606	210.944	1.06477
578	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Subtracted	15	28	13
	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]	Divided	224.606	210.944	1.06477
579	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Subtracted	15	28	13

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
- 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.