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	network_comparison	green

Results: HTML CSV LaTeX

Showing element 508 to 557 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
127	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	VPS33B	Divided	Low confidence	203.678	1.06705	190.88
128	adenomatous polyposis coli like. [refseq;acc:nm_005883]	APC2	Subtracted		222.34	13.207	235.547
	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP	Divided	High confidence	94	1.21277	114
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	PSEN1	Subtracted		285.684	33.45	252.234
	striatin. [swissprot;acc:o43815]	STRN	Divided	Low confidence	214.085	1.06618	200.796
129	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	CUL1	Subtracted	High confidence	285.684	33.45	252.234
	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]	COL4A3BP	Divided	Low confidence	220.969	1.06609	235.572
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24		High confidence	94	1.21277	114
	transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995]	TAGLN	Subtracted	Low confidence	218.561	13.13	205.431
130	neuronal protein np25. [swissprot;acc:q9ui15]	TAGLN3			218.66	13.09	205.57
	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	EGFL8		High confidence	242.735	33.324	276.059
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A	Divided		94	1.21277	114
	striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166]	ABRA		Low confidence	225.495	1.06602	211.529
131	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	EGFL7	Subtracted	High confidence	242.718	33.3	276.018
	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]	SON	Divided		294.053	1.21228	242.562
	striatin 4 (zinedin). [swissprot;acc:q9nrl3]	STRN4		Low confidence	213.878	1.065	200.825
			Subtracted			13.053
132	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]	DAZAP1	Divided		220.268	1.06411	206.997
	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L	Subtracted	High confidence	229.406	32.711	196.695
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	DVL1		Low confidence	203.016	13.051	189.965
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	TOB2	Divided	High confidence	350	1.2069	290
133	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	no value	Subtracted		226.887	32.167	194.72
	prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490]	PROM1	Divided	Low confidence	220.268	1.06411	206.997
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	DVL2	Subtracted		203.007	13.022	189.985
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	TOB1	Divided	High confidence	350	1.2069	290
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	DAB2IP
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	no value	Subtracted		226.884	32.094	194.79
	transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995]	TAGLN	Divided	Low confidence	218.561	1.06391	205.431
	transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802]	no value	Subtracted		218.36	12.96	205.4
135	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	CPEB4	Divided	High confidence	350	1.2069	290
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	FOXP4	Subtracted		263.215	31.808	231.407
	neuronal protein np25. [swissprot;acc:q9ui15]	TAGLN3	Divided	Low confidence	218.66	1.06368	205.57
	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	DVL3	Subtracted		202.96	12.866	190.094
136	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	CPEB3	Divided	High confidence	350	1.2069	290
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	FOXP1	Subtracted		263.215	31.808	231.407
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	Divided	Low confidence	202.996	1.06362	190.854
	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	ARHGEF7	Subtracted		219.344	12.824	206.52
137	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	FOXP3		High confidence	263.191	31.797	231.394
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	RASAL2	Divided		350	1.2069	290
	testican-3 precursor. [swissprot;acc:q9bq16]	no value		Low confidence	220.395	1.0635	234.389
	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	VPS33B	Subtracted		203.678	12.798	190.88
138	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	TIPRL		High confidence	174.667	30.889	205.556
	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	ARHGEF6		Low confidence	219.273	12.766	206.507
	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	PPP2CA	Divided	High confidence	194.372	1.20493	234.204
	transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802]	no value		Low confidence	218.36	1.0631	205.4
139	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	APBA1		High confidence	271.752	1.20415	225.68
	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	CHRAC1	Subtracted		287.41	30.575	256.835
	dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937]	DNAJC8		Low confidence	219.838	12.421	207.417
	testican-1 precursor (spock protein). [swissprot;acc:q08629]	SPOCK1	Divided		220.254	1.06291	234.111
140	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	NCBP2	Subtracted	High confidence	228.306	30.295	198.011

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.