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 5208 to 5257 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
2604	COG3	conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2]	Subtracted	224.891	225.195	0.304
2605	ACTR3B	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]
	PRUNE	tcd37 homolog; prune. [refseq;acc:nm_021222]	Divided	214.495	214.193	1.00141
2606	ARPC1B	arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]	Subtracted	224.891	225.195	0.304
	CNNM1	cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348]	Divided	214.5	214.198	1.00141
2607	MRPS22	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650]		215.497	215.799	1.0014
	ZMYM2	zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7]	Subtracted	224.891	225.195	0.304
2608	no value	nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946]	Divided	215.497	215.799	1.0014
	ACTR3	actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]	Subtracted	224.891	225.195	0.304
2609	ARPC3	arp2/3 complex 21 kda subunit (p21-arc) (actin-related protein 2/3 complex subunit 3). [swissprot;acc:o15145]
	LMX1A	lim homeobox transcription factor 1 alpha (lim/homeobox protein lmx1a) (lim-homeobox protein 1.1) (lmx-1.1). [swissprot;acc:q8te12]	Divided	215.497	215.799	1.0014
2610	NRD1	nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [swissprot;acc:o43847]	Subtracted	224.891	225.195	0.304
	TOMM70A	mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826]	Divided	215.497	215.799	1.0014
2611	ARPC1A	actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747]	Subtracted	224.891	225.195	0.304
	LMX1B	lim homeobox transcription factor 1 beta (lim/homeobox protein lmx1b) (lim-homeobox protein 1.2) (lmx-1.2). [swissprot;acc:o60663]	Divided	215.497	215.799	1.0014
2612	MRPS22	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650]	Subtracted			0.302
	PSMB2	proteasome subunit beta type 2 (ec 3.4.25.1) (proteasome component c7-i) (macropain subunit c7-i) (multicatalytic endopeptidase complex subunit c7-i). [swissprot;acc:p49721]	Divided			1.0014
2613	no value	nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946]	Subtracted			0.302
	ARL1	adp-ribosylation factor-like protein 1. [swissprot;acc:p40616]	Divided			1.0014
2614	CNNM3	cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623]	Subtracted	214.502	214.2	0.302
	RELA	transcription factor p65 (nuclear factor nf-kappa-b p65 subunit). [swissprot;acc:q04206]	Divided	202.821	202.54	1.00139
2615	LMX1A	lim homeobox transcription factor 1 alpha (lim/homeobox protein lmx1a) (lim-homeobox protein 1.1) (lmx-1.1). [swissprot;acc:q8te12]	Subtracted	215.497	215.799	0.302
	RELB	transcription factor relb (i-rel). [swissprot;acc:q01201]	Divided	202.821	202.54	1.00139
2616	CNNM4	cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184]	Subtracted	214.494	214.192	0.302
	NFKBIA	nf-kappab inhibitor alpha (major histocompatibility complex enhancer- binding protein mad3) (i-kappa-b-alpha) (ikappabalpha) (ikb-alpha). [swissprot;acc:p25963]	Divided	202.821	202.54	1.00139
2617	CPOX	coproporphyrinogen iii oxidase, mitochondrial precursor (ec 1.3.3.3) (coproporphyrinogenase) (coprogen oxidase) (cox). [swissprot;acc:p36551]
	TOMM70A	mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826]	Subtracted	215.497	215.799	0.302
2618	CNNM2	cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649]		214.486	214.184
	IDH2	isocitrate dehydrogenase [nadp], mitochondrial precursor (ec 1.1.1.42) (oxalosuccinate decarboxylase) (idh) (nadp+-specific icdh) (idp) (icd-m). [swissprot;acc:p48735]	Divided	190.166	190.429	1.00138
2619	PRUNE	tcd37 homolog; prune. [refseq;acc:nm_021222]	Subtracted	214.495	214.193	0.302
	SMARCC2	swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075]	Divided	220.024	219.722	1.00137
2620	PSMD9	26s proteasome non-atpase regulatory subunit 9 (26s proteasome regulatory subunit p27). [swissprot;acc:o00233]		215.615	215.91
	SMARCC2	swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075]	Subtracted	220.024	219.722	0.302
2621	no value	dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6]	Divided	224.891	225.195	1.00135
	LMX1B	lim homeobox transcription factor 1 beta (lim/homeobox protein lmx1b) (lim-homeobox protein 1.2) (lmx-1.2). [swissprot;acc:o60663]	Subtracted	215.497	215.799	0.302
2622	PSMB2	proteasome subunit beta type 2 (ec 3.4.25.1) (proteasome component c7-i) (macropain subunit c7-i) (multicatalytic endopeptidase complex subunit c7-i). [swissprot;acc:p49721]
	ZMYM6	zinc finger protein 258. [refseq;acc:nm_145310]	Divided	224.891	225.195	1.00135
2623	ARL1	adp-ribosylation factor-like protein 1. [swissprot;acc:p40616]	Subtracted	215.497	215.799	0.302
	ZMYM3	zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202]	Divided	224.891	225.195	1.00135
2624	CNNM1	cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348]	Subtracted	214.5	214.198	0.302
	ZMYM4	zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095]	Divided	224.891	225.195	1.00135
2625	KIAA1432	ba207c16.2 (fragment). [sptrembl;acc:q9nql7]	Subtracted	211.662	211.361	0.301
	WTAP	wilms' tumor 1-associating protein (wt1-associated protein). [swissprot;acc:q15007]	Divided	204.304	204.028	1.00135
2626	ACTR2	actin-like protein 2 (actin-related protein 2). [swissprot;acc:o15142]		224.891	225.195
	CANT1	ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]	Subtracted	192.625	192.922	0.297
2627	COG3	conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2]	Divided	224.891	225.195	1.00135
	PSMD9	26s proteasome non-atpase regulatory subunit 9 (26s proteasome regulatory subunit p27). [swissprot;acc:o00233]	Subtracted	215.615	215.91	0.295
2628	ACTR3B	similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2]	Divided	224.891	225.195	1.00135
	TAF5	transcription initiation factor tfiid 100 kda subunit (tafii-100) (tafii100). [swissprot;acc:q15542]	Subtracted	202.142	202.436	0.294
2629	ARPC1B	arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]	Divided	224.891	225.195	1.00135

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.