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	Value Type	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1625 to 1674 of 12912 in total

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

Rank	Hugo	Value Type	description	red	green	network_comparison
407	no value	Rooted	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	49.9856	45.4431	1.09996
	HTRA4	Squared	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	18995.7	23244.9	1.22369
	MRPS9	Ranked	28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	239.75	260.544	1.08673
	WIPF1	Measured	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516]	6603.41	7664.65	1.16071
408	no value		dok-like protein. [refseq;acc:nm_024872]	6102.59	7081.46	1.1604
		Rooted	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	49.9856	45.4432	1.09996
	CEBPZ	Ranked	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [swissprot;acc:q03701]	255.112	234.804	1.08649
	HTRA3	Squared	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	18995.7	23244.7	1.22368
409	DOK2	Measured	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496]	6102.59	7081.46	1.1604
	HTRA1	Squared	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	18995.6	23242.8	1.22359
	MRPL3	Rooted	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	50.4409	45.8795	1.09942
	POLR1E	Ranked	rna polymerase i associated factor 53. [refseq;acc:nm_022490]	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	Squared	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	19546.1	23881.6	1.22181
	DOK1	Measured	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704]	6102.59	7081.46	1.1604
	PAH	Rooted	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	55.5489	50.535	1.09922
411	DUS1L		pp3111 protein. [refseq;acc:nm_022156]
	FRK	Measured	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	6102.59	7081.46	1.1604
	GTF2H1	Ranked	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]	233.376	253.539	1.0864
	SNRPD3	Squared	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	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	Measured	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390]	3594.31	4169.95	1.16015
	STX18	Rooted	syntaxin 18. [swissprot;acc:q9p2w9]	55.5489	50.535	1.09922
	UQCRFSL1	Ranked	ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor (ec 1.10.2.2) (rieske iron-sulfur protein) (risp). [swissprot;acc:p47985]	240.788	261.416	1.08567
413	no value	Rooted	rd protein. [swissprot;acc:p18615]	55.5489	50.535	1.09922
	NEDD9	Squared	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]	19568.3	23904.6	1.2216
	POLR1C	Ranked	dna-directed rna polymerase i 40 kda polypeptide (ec 2.7.7.6) (rpa40) (rpa39). [swissprot;acc:o15160]	240.913	261.45	1.08525
	VAV1	Measured	vav proto-oncogene. [swissprot;acc:p15498]	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	Squared	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]	22109.6	26989.4	1.22071
	GSTO1	Rooted	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	55.5489	50.535	1.09922
	KATNA1	Ranked	katanin p60 subunit a 1. [refseq;acc:nm_007044]	232.431	252.238	1.08522
415	AIG1	Rooted	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	55.5489	50.535	1.09922
	KATNB1	Ranked	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	232.382	252.166	1.08514
	SORBS3	Squared	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	29160.4	35570.2	1.21981
	VAV3	Measured	vav-3 protein. [swissprot;acc:q9ukw4]	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	Rooted	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	55.5489	50.535	1.09922
	PHB	Squared	prohibitin. [swissprot;acc:p35232]	22841.8	27856.2	1.21953
	POLR1B	Ranked	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [swissprot;acc:q9h9y6]	240.6	261.041	1.08496
417	no value	Squared	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	22841.8	27856.2	1.21953
	BAG3	Measured	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]	4522.71	5233.14	1.15708
	DNAJC12	Rooted	j domain containing protein 1. [swissprot;acc:q9ukb3]	55.5489	50.535	1.09922
	SETMAR	Ranked	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	233.539	253.197	1.08417
418	BCAS2	Measured	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	5493.1	6350.19	1.15603
	CLEC4M	Ranked	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	233.539	253.197	1.08417
	ENOPH1	Squared	e-1 enzyme. [refseq;acc:nm_021204]	30903.8	37638.1	1.21791
	SNX13	Rooted	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	55.5489	50.535	1.09922
419	APOA1BP	Squared	apolipoprotein a-i binding protein; apoa-i binding protein. [refseq;acc:nm_144772]	24832.1	30242.8	1.21789
	CDC5L	Measured	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]	5493.1	6350.19	1.15603

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.