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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1630 to 1679 of 12912 in total

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

Rank	Hugo	description	Value Type	red	green	network_comparison
408	no value	dok-like protein. [refseq;acc:nm_024872]	Measured	6102.59	7081.46	1.1604
	CEBPZ	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	Ranked	255.112	234.804	1.08649
	HTRA3	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Squared	18995.7	23244.7	1.22368
409	DOK2	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	Measured	6102.59	7081.46	1.1604
	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Squared	18995.6	23242.8	1.22359
	MRPL3	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	Rooted	50.4409	45.8795	1.09942
	POLR1E	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	Ranked	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
	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	Squared	19546.1	23881.6	1.22181
	DOK1	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	Measured	6102.59	7081.46	1.1604
	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Rooted	55.5489	50.535	1.09922
411	DUS1L	pp3111 protein. [refseq;acc:nm_022156]
	FRK	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	Measured	6102.59	7081.46	1.1604
	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]	Ranked	233.376	253.539	1.0864
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Squared	17861.2	21821.8	1.22174
412	CCT4	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]		19556	23891.8	1.22171
	MKI67IP	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	Measured	3594.31	4169.95	1.16015
	STX18	syntaxin 18. [swissprot;acc:q9p2w9]	Rooted	55.5489	50.535	1.09922
	UQCRFSL1	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	Ranked	240.788	261.416	1.08567
413	no value	rd protein. [swissprot;acc:p18615]	Rooted	55.5489	50.535	1.09922
	NEDD9	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	Squared	19568.3	23904.6	1.2216
	POLR1C	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	Ranked	240.913	261.45	1.08525
	VAV1	vav proto-oncogene. [swissprot;acc:p15498]	Measured	6644.99	7707.8	1.15994
414	ATG5	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]		6744.05	5815.13	1.15974
	DPM1	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762]	Squared	22109.6	26989.4	1.22071
	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	Rooted	55.5489	50.535	1.09922
	KATNA1	katanin p60 subunit a 1. [refseq;acc:nm_007044]	Ranked	232.431	252.238	1.08522
415	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	Rooted	55.5489	50.535	1.09922
	KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	Ranked	232.382	252.166	1.08514
	SORBS3	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	Squared	29160.4	35570.2	1.21981
	VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	Measured	6647.43	7706.18	1.15927
416	ARD1A	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]		4509.54	5223.95	1.15842
	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	Rooted	55.5489	50.535	1.09922
	PHB	prohibitin. [swissprot;acc:p35232]	Squared	22841.8	27856.2	1.21953
	POLR1B	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	Ranked	240.6	261.041	1.08496
417	no value	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Squared	22841.8	27856.2	1.21953
	BAG3	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817]	Measured	4522.71	5233.14	1.15708
	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]	Rooted	55.5489	50.535	1.09922
	SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Ranked	233.539	253.197	1.08417
418	BCAS2	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	Measured	5493.1	6350.19	1.15603
	CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Ranked	233.539	253.197	1.08417
	ENOPH1	e-1 enzyme. [refseq;acc:nm_021204]	Squared	30903.8	37638.1	1.21791
	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	Rooted	55.5489	50.535	1.09922
419	APOA1BP	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	Squared	24832.1	30242.8	1.21789
	CDC5L	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	Measured	5493.1	6350.19	1.15603
	FCER2	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	Ranked	233.539	253.197	1.08417
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Rooted	55.5489	50.535	1.09922
420	CD209	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	Ranked	233.539	253.197	1.08417
	HPRT1	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	Measured	10235.2	11830.8	1.15589
	POLE	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	Rooted	51.7959	56.9253	1.09903

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.