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

Results: HTML CSV LaTeX

Showing element 75 to 124 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Network Comparison Type	Hugo	Interaction Map	red	green	network_comparison
19	histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773]	Subtracted	HINT1	Low confidence	188.298	228.509	40.211
	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Divided	PRSS3		304.548	246.824	1.23387
20	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]		PYGL	High confidence	185.678	245.247	1.32082
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Subtracted	GNG11		266.868	336.159	69.291
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]		TOB2	Low confidence	297.273	258.59	38.683
	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Divided	PRSS1		304.359	246.737	1.23354
21	gbp protein isoform a. [refseq;acc:nm_017870]	Subtracted	TMEM132A	High confidence	325.586	256.492	69.094
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Divided	MYO15A		185.678	245.247	1.32082
	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]		PIGF	Low confidence	198	163	1.21472
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Subtracted	TOB1		296.837	258.33	38.507
22	dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985]		MAP2K4		210.241	246.125	35.884
	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	Divided	PYGM	High confidence	185.678	245.247	1.32082
	n33 protein. [swissprot;acc:q13454]		TUSC3	Low confidence	198	163	1.21472
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Subtracted	PPP1R14A	High confidence	322	253	69
23	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Divided	MRPS17		58	44	1.31818
	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	Subtracted	GNPDA2	Low confidence	247.202	282.937	35.735
	implantation-associated protein. [refseq;acc:nm_032121]	Divided	no value		198	163	1.21472
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Subtracted	MFAP4	High confidence	322	253	69
24	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]		GNPDA1	Low confidence	247.202	282.937	35.735
	histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773]	Divided	HINT1		188.298	228.509	1.21355
	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]		PANK1	High confidence	58	44	1.31818
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Subtracted	PPP1R14D		322	253	69
25	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	Divided	CYP27B1	Low confidence	286.396	238.476	1.20094
	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Subtracted	FCN2	High confidence	322	253	69
	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Divided	PANK2		58	44	1.31818
	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]	Subtracted	PIGF	Low confidence	198	163	35
26	cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	Divided	CYP27A1		286.347	238.454	1.20085
	n33 protein. [swissprot;acc:q13454]	Subtracted	TUSC3		198	163	35
	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Divided	PANK3	High confidence	58	44	1.31818
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Subtracted	no value		322	253	69
27	cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973]	Divided	CYP24A1	Low confidence	284.798	237.743	1.19792
	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	Subtracted	GNAQ	High confidence	267.136	336.077	68.941
	implantation-associated protein. [refseq;acc:nm_032121]		no value	Low confidence	198	163	35
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Divided	SLC25A43	High confidence	58	44	1.31818
28	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]		no value	Low confidence	142	170	1.19718
	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]		ATF3	High confidence	201.949	153.671	1.31416
		Subtracted		Low confidence	203.115	170.557	32.558
	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]		GNA11	High confidence	267.136	336.077	68.941
29	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]		CHRAC1	Low confidence	250.244	217.843	32.401
	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	Divided	ATF3		203.115	170.557	1.19089
	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]	Subtracted	GNAZ	High confidence	267.139	336.075	68.936
	uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]	Divided	PPP2R2D		187.458	243.678	1.29991
30	bcl2-related ovarian killer. [refseq;acc:nm_032515]		BOK	Low confidence	265.638	223.235	1.18995
	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	Subtracted	GNAT2	High confidence	267.14	336.075	68.935
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	Divided	no value		187.457	243.678	1.29991
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	Subtracted	SON	Low confidence	255.382	223.538	31.844
31	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]		no value		142	170	28
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Divided	DNASE2B		57.395	48.8186	1.17568
	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Subtracted	GNAT1	High confidence	267.14	336.075	68.935
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Divided	PPP2R2B		187.458	243.677	1.2999

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.