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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 482 to 531 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Interaction Map	red	network_comparison	green
121	Divided	DVL2	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	Low confidence	203.007	1.06854	189.985
	Subtracted	TIAL1	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	High confidence	227.202	34.379	192.823
		VPS33A	vacuolar protein sorting 33a (hvps33a). [swissprot;acc:q96ax1]	Low confidence	203.914	13.725	190.189
122	Divided	no value	nanos (fragment). [sptrembl;acc:q8wy41]		203.66	1.06785	217.479
		KCND3	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	High confidence	269.248	1.21688	327.642
	Subtracted	COPS3	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]		199.949	34.238	234.187
		VPS18	vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253]	Low confidence	204.161	13.37	190.791
123	Divided	DVL3	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]		202.96	1.06768	190.094
		KCND1	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	High confidence	269.23	1.21681	327.601
	Subtracted	SNRPD1	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]		227.032	33.976	193.056
		STRN	striatin. [swissprot;acc:o43815]	Low confidence	214.085	13.289	200.796
124	Divided	HMG20B	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]	High confidence	208.52	1.21519	171.595
		SLC11A2	natural resistance-associated macrophage protein 2 (nramp 2) (divalent metal transporter 1) (dmt1). [swissprot;acc:p49281]	Low confidence	224.763	1.06742	210.566
	Subtracted	DAZAP1	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]		220.268	13.271	206.997
		PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	High confidence	285.684	33.45	252.234
125	Divided	B9D1	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	Low confidence	213.243	1.0674	227.616
		HMG20A	high-mobility group 20a. [refseq;acc:nm_018200]	High confidence	208.588	1.21429	171.778
	Subtracted	PROM1	prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490]	Low confidence	220.268	13.271	206.997
		SKP1A	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	High confidence	285.684	33.45	252.234
126	Divided	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Low confidence	191.688	1.06707	179.639
		STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	High confidence	94	1.21277	114
	Subtracted	FBXW7	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]		285.684	33.45	252.234
		NDUFS4	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]	Low confidence	226.892	13.231	213.661
127	Divided	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	High confidence	94	1.21277	114
		VPS33B	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	Low confidence	203.678	1.06705	190.88
	Subtracted	APC	adenomatous polyposis coli protein (apc protein). [swissprot;acc:p25054]		222.31	13.228	235.538
		CUL2	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	High confidence	285.684	33.45	252.234
128	Divided	STAMBP	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]		94	1.21277	114
		STRN	striatin. [swissprot;acc:o43815]	Low confidence	214.085	1.06618	200.796
	Subtracted	APC2	adenomatous polyposis coli like. [refseq;acc:nm_005883]		222.34	13.207	235.547
		PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	High confidence	285.684	33.45	252.234
129	Divided	COL4A3BP	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]	Low confidence	220.969	1.06609	235.572
		VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	High confidence	94	1.21277	114
	Subtracted	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]		285.684	33.45	252.234
		TAGLN	transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995]	Low confidence	218.561	13.13	205.431
130	Divided	ABRA	striated muscle activator of rho-dependent signaling. [refseq;acc:nm_139166]		225.495	1.06602	211.529
		CHMP4A	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	High confidence	94	1.21277	114
	Subtracted	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]		242.735	33.324	276.059
		TAGLN3	neuronal protein np25. [swissprot;acc:q9ui15]	Low confidence	218.66	13.09	205.57
131	Divided	SON	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]	High confidence	294.053	1.21228	242.562
		STRN4	striatin 4 (zinedin). [swissprot;acc:q9nrl3]	Low confidence	213.878	1.065	200.825
	Subtracted	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	High confidence	242.718	33.3	276.018
		STRN4	striatin 4 (zinedin). [swissprot;acc:q9nrl3]	Low confidence	213.878	13.053	200.825
132	Divided	DAZAP1	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]		220.268	1.06411	206.997
		TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	High confidence	350	1.2069	290
	Subtracted	DVL1	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]	Low confidence	203.016	13.051	189.965
		NCBP2L	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	High confidence	229.406	32.711	196.695
133	Divided	PROM1	prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490]	Low confidence	220.268	1.06411	206.997
		TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	High confidence	350	1.2069	290
	Subtracted	no value	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]		226.887	32.167	194.72

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.