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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 530 to 579 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
133	DVL2	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	Subtracted	Low confidence	203.007	189.985	13.022
	PROM1	prominin-like protein 1 precursor (antigen ac133) (cd133 antigen). [swissprot;acc:o43490]	Divided		220.268	206.997	1.06411
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]		High confidence	350	290	1.2069
134	no value	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Subtracted		226.884	194.79	32.094
		transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802]		Low confidence	218.36	205.4	12.96
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Divided	High confidence	350	290	1.2069
	TAGLN	transgelin (smooth muscle protein 22-alpha) (sm22-alpha) (ws3-10) (22 kda actin-binding protein). [swissprot;acc:q01995]		Low confidence	218.561	205.431	1.06391
135	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]		High confidence	350	290	1.2069
	DVL3	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	Subtracted	Low confidence	202.96	190.094	12.866
	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]		High confidence	263.215	231.407	31.808
	TAGLN3	neuronal protein np25. [swissprot;acc:q9ui15]	Divided	Low confidence	218.66	205.57	1.06368
136	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	Subtracted		219.344	206.52	12.824
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Divided	High confidence	350	290	1.2069
	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Subtracted		263.215	231.407	31.808
	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]	Divided	Low confidence	202.996	190.854	1.06362
137	no value	testican-3 precursor. [swissprot;acc:q9bq16]			220.395	234.389	1.0635
	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Subtracted	High confidence	263.191	231.394	31.797
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Divided		350	290	1.2069
	VPS33B	vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267]	Subtracted	Low confidence	203.678	190.88	12.798
138	no value	transgelin 2 (sm22-alpha homolog). [swissprot;acc:p37802]	Divided		218.36	205.4	1.0631
	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	Subtracted		219.273	206.507	12.766
	PPP2CA	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	Divided	High confidence	194.372	234.204	1.20493
	TIPRL	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	Subtracted		174.667	205.556	30.889
139	APBA1	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]	Divided		271.752	225.68	1.20415
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Subtracted		287.41	256.835	30.575
	DNAJC8	dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937]		Low confidence	219.838	207.417	12.421
	SPOCK1	testican-1 precursor (spock protein). [swissprot;acc:q08629]	Divided		220.254	234.111	1.06291
140	GGNBP2	c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835]	Subtracted		219.838	207.417	12.421
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		High confidence	228.306	198.011	30.295
	RRAGA	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Divided		59	49	1.20408
	SPOCK2	testican-2 precursor. [swissprot;acc:q92563]		Low confidence	220.222	234.047	1.06278
141	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]			219.344	206.52	1.0621
	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	Subtracted	High confidence	239.991	269.238	29.247
	MAN1B1	endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7]		Low confidence	211.056	198.732	12.324
	RRAGC	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Divided	High confidence	59	49	1.20408
142	MAN1B1	endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7]		Low confidence	211.056	198.732	1.06201
	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Subtracted				12.324
	RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Divided	High confidence	59	49	1.20408
	THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]	Subtracted		239.99	269.234	29.244
143	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Divided		59	49	1.20408
	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]	Subtracted	Low confidence	211.056	198.732	12.324
	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Divided				1.06201
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Subtracted	High confidence	240.133	211.382	28.751
144	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]			239.35	267.915	28.565
	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]	Divided	Low confidence	211.056	198.732	1.06201
	KCNIP1	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]		High confidence	265.686	319.651	1.20312
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Subtracted	Low confidence	211.056	198.732	12.324
145	KCNIP4	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	Divided	High confidence	265.639	319.546	1.20293
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]		Low confidence	211.056	198.732	1.06201
	SENP8	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Subtracted		210.579	198.33	12.249

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.