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

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
network_comparison  : 0
green  : 0

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