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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 223 to 272 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
112	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	POLE4	Subtracted	275.754	235.908	39.846
	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	PBK	Divided	332.874	267.246	1.24557
113	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	KHDRBS3
	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	Subtracted	194.372	234.204	39.832
114	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	B9D1		229.818	267.265	37.447
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1	Divided	332.874	267.246	1.24557
115	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	Subtracted	277.546	240.461	37.085
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2	Divided	332.874	267.246	1.24557
116	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	GNB3		268.565	334.483	1.24545
	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	Subtracted	208.52	171.595	36.925
117	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A		208.588	171.778	36.81
	neuralized-like. [refseq;acc:nm_004210]	NEURL	Divided	332.326	266.948	1.24491
118	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	NDUFA12		284.753	228.934	1.24382
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	OSR1	Subtracted	274.027	237.79	36.237
119	adiponectin receptor 2. [refseq;acc:nm_024551]	ADIPOR2		281.582	246.371	35.211
	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]	NDUFS4	Divided	318.982	259.004	1.23157
120	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	TIA1	Subtracted	227.199	192.715	34.484
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	KCND2	Divided	269.278	327.709	1.21699
121	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	CTH		269.254	327.655	1.2169
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	TIAL1	Subtracted	227.202	192.823	34.379
122	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	COPS3		199.949	234.187	34.238
	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]	KCND3	Divided	269.248	327.642	1.21688
123	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1		269.23	327.601	1.21681
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	SNRPD1	Subtracted	227.032	193.056	33.976
124	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	208.52	171.595	1.21519
	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	PSEN2	Subtracted	285.684	252.234	33.45
125	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	Divided	208.588	171.778	1.21429
	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]	SKP1A	Subtracted	285.684	252.234	33.45
126	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	STAMBPL1	Divided	94	114	1.21277
	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]	FBXW7	Subtracted	285.684	252.234	33.45
127	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	CUL2
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	CHMP2A	Divided	94	114	1.21277
128	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	PSEN1	Subtracted	285.684	252.234	33.45
129	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	CUL1
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24	Divided	94	114	1.21277
130	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	EGFL8	Subtracted	242.735	276.059	33.324
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A	Divided	94	114	1.21277
131	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	EGFL7	Subtracted	242.718	276.018	33.3
	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	242.562	1.21228
132	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L	Subtracted	229.406	196.695	32.711
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	TOB2	Divided	350	290	1.2069
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	194.72	32.167
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	TOB1	Divided	350	290	1.2069
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	194.79	32.094
135	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	CPEB4	Divided	350	290	1.2069
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	FOXP4	Subtracted	263.215	231.407	31.808
136	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	CPEB3	Divided	350	290	1.2069
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	FOXP1	Subtracted	263.215	231.407	31.808

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.