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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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Rank	description	Network Comparison Type	Gene	Hugo	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1558 to 1607 of 2060 in total

Network Comparison Type  : Subtracted
Interaction Map  : High confidence
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0

Rank	description	Hugo	Value Type
3145	beta-ureidopropionase (ec 3.5.1.6) (beta-alanine synthase) (n-carbamoyl-beta-alanine amidohydrolase) (bup-1). [swissprot;acc:q9ubr1]	UPB1	Ranked
			Squared
			Rooted
3146	putative nadh oxidoreductase complex i subunit homolog. [sptrembl;acc:q96q80]	DERL3	Measured
			Ranked
			Squared
			Rooted
3147	3 beta-hydroxy-delta 5-c27-steroid oxidoreductase. [refseq;acc:nm_025193]	HSD3B7	Measured
			Ranked
			Squared
			Rooted
3148	muts protein homolog 5. [swissprot;acc:o43196]	no value	Measured
			Ranked
			Squared
			Rooted
3149	bromodomain and phd finger-containing protein 3 (fragment). [swissprot;acc:q9uld4]	BRPF3	Measured
			Ranked
			Squared
			Rooted
3150	cysteine-rich secretory protein-3 precursor (crisp-3) (sgp28 protein). [swissprot;acc:p54108]	CRISP3	Measured
			Ranked
			Squared
			Rooted
3151	dna mismatch repair protein msh2. [swissprot;acc:p43246]	MSH2	Measured
			Ranked
			Squared
			Rooted
3152	histone deacetylase 6 (hd6). [swissprot;acc:q9ubn7]	HDAC6	Measured
			Ranked
			Squared
			Rooted
3153	leucine rich repeat (in flii) interacting protein 2. [refseq;acc:nm_006309]	LRRFIP2	Measured
			Ranked
			Squared
			Rooted
3154	nucleoporin 50 kda (nuclear pore-associated protein 60 kda-like) (pro1146). [swissprot;acc:q9ukx7]	NUP50	Measured
			Ranked
			Squared
			Rooted
3155	transforming growth factor beta 2 precursor (tgf-beta 2) (glioblastoma-derived t-cell suppressor factor) (g-tsf) (bsc-1 cell growth inhibitor) (polyergin) (cetermin). [swissprot;acc:p08112]	TGFB2	Measured
			Ranked
			Squared
			Rooted
3156	tektin 2 (tektin-t) (testicular tektin b1-like protein). [swissprot;acc:q9uif3]	TEKT2	Measured
			Ranked
			Squared
			Rooted
3157	vesicle transport-related protein isoform a; vesicle transport-related protein. [refseq;acc:nm_016106]	SCFD1	Measured
			Ranked
			Squared

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.