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	description	Value Type	Interaction Map	Filtered	network_comparison	red	green

Results: HTML CSV LaTeX

Showing element 673 to 722 of 1892 in total

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

Rank	Hugo	description	Value Type
2924	RQCD1	rcd1 required for cell differentiation1 homolog; protein involved in sexual development; rcd1 (required for cell differentiation, s.pombe) homolog 1. [refseq;acc:nm_005444]	Measured
			Ranked
			Squared
			Rooted
2925	RALB	ras-related protein ral-b. [swissprot;acc:p11234]	Measured
			Ranked
			Squared
			Rooted
2926	DUSP11	dual specificity protein phosphatase 11 (ec 3.1.3.48) (rna/rnp complex-intereracting phosphatase) (phosphatase that interacts with rna/rnp complex 1). [swissprot;acc:o75319]	Measured
			Ranked
			Squared
			Rooted
2927	CIAO1	wd-repeat containing protein ciao 1. [swissprot;acc:o76071]	Measured
			Ranked
			Squared
			Rooted
2928	no value	calmodulin. [swissprot;acc:p02593]	Measured
			Ranked
			Squared
			Rooted
2929	LYST	lysosomal trafficking regulator (beige homolog). [swissprot;acc:q99698]	Measured
			Ranked
			Squared
			Rooted
2930	ILF2	interleukin enhancer binding factor 2; nuclear factor of activated t-cells, 45-kda. [refseq;acc:nm_004515]	Measured
			Ranked
			Squared
			Rooted
2931	TPM3	tropomyosin alpha 3 chain (tropomyosin 3) (tropomyosin gamma). [swissprot;acc:p06753]	Measured
			Ranked
			Squared
			Rooted
2932	POGZ	pogo transposable element with znf domain isoform 1. [refseq;acc:nm_015100]	Measured
			Ranked
			Squared
			Rooted
2933	SEMA6C	semaphorin 6c precursor (semaphorin y) (sema y). [swissprot;acc:q9h3t2]	Measured
			Ranked
			Squared
			Rooted
2934	PPOX	protoporphyrinogen oxidase (ec 1.3.3.4) (ppo). [swissprot;acc:p50336]	Measured
			Ranked
			Squared
			Rooted
2935	TMCO1	putative membrane protein. [refseq;acc:nm_019026]	Measured
			Ranked
			Squared
			Rooted
2936	RXRG	retinoic acid receptor rxr-gamma. [swissprot;acc:p48443]	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.