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

Results: HTML CSV LaTeX

Showing element 512 to 561 of 12912 in total

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

Rank	description	Hugo	Value Type	red	green	network_comparison
128	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	TARDBP	Rooted	48.0515	39.0445	1.23069
129	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L		54.2343	66.7323	1.23044
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	LUC7L	Measured	4358.13	5811.49	1.33348
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24	Ranked	94	114	1.21277
	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	PCF11	Squared	178263	118639	1.50257
130	44050 protein. [refseq;acc:nm_178832]	C10orf83		148058	99628.4	1.4861
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	FOXP4	Measured	2234.68	2978.53	1.33287
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	no value	Rooted	55.1026	67.5701	1.22626
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A	Ranked	94	114	1.21277
131	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	FOXP1	Measured	2234.73	2978.57	1.33285
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	no value	Rooted	55.1113	67.5537	1.22577
	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	PPP1R8	Squared	148058	99628.4	1.4861
	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	Ranked	294.053	242.562	1.21228
132	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	ATG5	Squared	36359.2	24466.8	1.48606
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	FOXP3	Measured	2236.61	2980.35	1.33253
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	Rooted	44.963	55.0576	1.22451
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	TOB2	Ranked	350	290	1.2069
133	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	GABARAP	Measured	23421.5	17580.4	1.33225
	gbp protein isoform a. [refseq;acc:nm_017870]	TMEM132A	Squared	1182.25	1726.55	1.46039
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	OSR1	Rooted	45.4558	55.5995	1.22316
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	TOB1	Ranked	350	290	1.2069
134	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	DAB2IP
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	POLE4	Rooted	44.849	54.7964	1.2218
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	no value	Measured	21785.2	16426.1	1.32626
	p66 alpha. [refseq;acc:nm_017660]	GATAD2A	Squared	81888.8	56306.5	1.45434
135	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	NCBP2	Rooted	54.935	66.6101	1.21253
	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	ATG3	Measured	21785.2	16426.1	1.32626
	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	CPEB4	Ranked	350	290	1.2069
	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	GATAD2B	Squared	81888.8	56306.5	1.45434
136	adiponectin receptor 2. [refseq;acc:nm_024551]	ADIPOR2	Rooted	41.8357	50.6469	1.21061
	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	CPEB3	Ranked	350	290	1.2069
	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	NFYC	Measured	3620.77	4763.34	1.31556
	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	no value	Squared	81888.8	56306.5	1.45434
137	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	NFYA	Measured	3620.77	4763.34	1.31556
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	CDK3	Squared	81606.8	56215.8	1.45167
	musashi 2 isoform a. [refseq;acc:nm_138962]	MSI2	Rooted	54.9787	66.2416	1.20486
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	RASAL2	Ranked	350	290	1.2069
138	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	KCNIP1	Measured	2755.15	2094.3	1.31555
	musashi 1. [refseq;acc:nm_002442]	MSI1	Rooted	54.9787	66.2416	1.20486
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	UBAC1	Squared	468498	322755	1.45156
	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	Ranked	194.372	234.204	1.20493
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		271.752	225.68	1.20415
	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	CCNB2	Squared	81592.1	56211.1	1.45153
	nuclear protein ukp68. [refseq;acc:nm_024824]	ZC3H14	Rooted	54.9787	66.2416	1.20486
	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	KCNIP4	Measured	2759.61	2099.49	1.31442
140	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	CDK2	Squared	81527.6	56190.6	1.45091
	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	FLNB	Rooted	55.6161	66.7332	1.19989
	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	KCNIP2	Measured	2760.28	2100.27	1.31425
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	RRAGA	Ranked	59	49	1.20408
141	g2/mitotic-specific cyclin b1. [swissprot;acc:p14635]	CCNB1	Squared	81520.8	56188.5	1.45084

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.