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

Results: HTML CSV LaTeX

Showing element 232 to 281 of 6456 in total

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

Rank	Hugo	Network Comparison Type	description	red	green	network_comparison
116	HMG20B	Subtracted	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]	208.52	171.595	36.925
117	HMG20A		high-mobility group 20a. [refseq;acc:nm_018200]	208.588	171.778	36.81
	NEURL	Divided	neuralized-like. [refseq;acc:nm_004210]	332.326	266.948	1.24491
118	NDUFA12		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]	284.753	228.934	1.24382
	OSR1	Subtracted	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	274.027	237.79	36.237
119	ADIPOR2		adiponectin receptor 2. [refseq;acc:nm_024551]	281.582	246.371	35.211
	NDUFS4	Divided	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]	318.982	259.004	1.23157
120	KCND2		potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	269.278	327.709	1.21699
	TIA1	Subtracted	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	227.199	192.715	34.484
121	CTH	Divided	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	269.254	327.655	1.2169
	TIAL1	Subtracted	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	227.202	192.823	34.379
122	COPS3		cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	199.949	234.187	34.238
	KCND3	Divided	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]	269.248	327.642	1.21688
123	KCND1		potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	269.23	327.601	1.21681
	SNRPD1	Subtracted	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	227.032	193.056	33.976
124	HMG20B	Divided	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]	208.52	171.595	1.21519
	PSEN2	Subtracted	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	285.684	252.234	33.45
125	HMG20A	Divided	high-mobility group 20a. [refseq;acc:nm_018200]	208.588	171.778	1.21429
	SKP1A	Subtracted	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]	285.684	252.234	33.45
126	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]
	STAMBPL1	Divided	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	94	114	1.21277
127	CHMP2A		putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]
	CUL2	Subtracted	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	285.684	252.234	33.45
128	PSEN1		presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]
	STAMBP	Divided	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	94	114	1.21277
129	CUL1	Subtracted	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	285.684	252.234	33.45
	VPS24	Divided	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	94	114	1.21277
130	CHMP4A		protein hspc134 (protein cda04). [swissprot;acc:q9by43]
	EGFL8	Subtracted	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	242.735	276.059	33.324
131	EGFL7		egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	242.718	276.018	33.3
	SON	Divided	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]	294.053	242.562	1.21228
132	NCBP2L	Subtracted	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	229.406	196.695	32.711
	TOB2	Divided	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	350	290	1.2069
133	no value	Subtracted	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	226.887	194.72	32.167
	TOB1	Divided	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	350	290	1.2069
134	no value	Subtracted	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	226.884	194.79	32.094
	DAB2IP	Divided	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	350	290	1.2069
135	CPEB4		cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]
	FOXP4	Subtracted	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	263.215	231.407	31.808
136	CPEB3	Divided	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	350	290	1.2069
	FOXP1	Subtracted	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	263.215	231.407	31.808
137	FOXP3		forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	263.191	231.394	31.797
	RASAL2	Divided	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	350	290	1.2069
138	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]	194.372	234.204	1.20493
	TIPRL	Subtracted	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	174.667	205.556	30.889
139	APBA1	Divided	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]	271.752	225.68	1.20415
	CHRAC1	Subtracted	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	287.41	256.835	30.575
140	NCBP2		20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	228.306	198.011	30.295
	RRAGA	Divided	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	59	49	1.20408
141	COMP	Subtracted	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	239.991	269.238	29.247

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.