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	red	Filtered	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1025 to 1074 of 2060 in total

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

Rank	description	Hugo	Value Type
3012	small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678]	SNRPB	Measured
			Ranked
			Squared
			Rooted
3013	major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199]	CENPB	Measured
			Ranked
			Squared
			Rooted
3014	mitochondrial deoxynucleotide carrier (mitochondrial uncoupling protein 1). [swissprot;acc:q9hc21]	SLC25A19	Measured
			Ranked
			Squared
			Rooted
3015	pericentrin 1; frount; nucleoporin nup75. [refseq;acc:nm_024844]	NUP85	Measured
			Ranked
			Squared
			Rooted
3016	mitochondrial ribosomal protein s7; 30s ribosomal protein s7 homolog. [refseq;acc:nm_015971]	MRPS7	Measured
			Ranked
			Squared
			Rooted
3017	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	LRRFIP1	Measured
			Ranked
			Squared
			Rooted
3018	cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	CRISP1	Measured
			Ranked
			Squared
			Rooted
3019	testis intracellular mediator protein. [refseq;acc:nm_057161]	KLHDC3	Measured
			Ranked
			Squared
			Rooted
3020	protein kinase c and casein kinase substrate in neurons protein 1. [swissprot;acc:q9by11]	PACSIN1	Measured
			Ranked
			Squared
			Rooted
3021	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]	CRISP2	Measured
			Ranked
			Squared
			Rooted
3022	n-acetylglucosamine kinase (ec 2.7.1.59) (glcnac kinase). [swissprot;acc:q9uj70]	NAGK	Measured
			Ranked
			Squared
			Rooted
3023	vesicle-associated membrane protein-associated protein b/c (vamp- associated protein b/c) (vamp-b/vamp-c) (vap-b/vap-c). [swissprot;acc:o95292]	VAPB	Measured
			Ranked
			Squared
			Rooted
3024	phosphatidylinositol glycan class t precursor. [refseq;acc:nm_015937]	PIGT	Measured
			Ranked

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.