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

Results: HTML CSV LaTeX

Showing element 712 to 761 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
2933	SEMA6C	Rooted	semaphorin 6c precursor (semaphorin y) (sema y). [swissprot;acc:q9h3t2]
2934	PPOX	Measured	protoporphyrinogen oxidase (ec 1.3.3.4) (ppo). [swissprot;acc:p50336]
		Ranked
		Squared
		Rooted
2935	TMCO1	Measured	putative membrane protein. [refseq;acc:nm_019026]
		Ranked
		Squared
		Rooted
2936	RXRG	Measured	retinoic acid receptor rxr-gamma. [swissprot;acc:p48443]
		Ranked
		Squared
		Rooted
2937	MOBKL2C	Measured	similar to mob-lak. [refseq;acc:nm_145279]
		Ranked
		Squared
		Rooted
2938	CYR61	Measured	cyr61 protein precursor (cysteine-rich, angiogenic inducer, 61) (insulin-like growth factor-binding protein 10) (gig1 protein). [swissprot;acc:o00622]
		Ranked
		Squared
		Rooted
2939	FBN3	Measured	fibrillin 3. [refseq;acc:nm_032447]
		Ranked
		Squared
		Rooted
2940	no value	Measured	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]
		Ranked
		Squared
		Rooted
2941	TAF4B	Measured	transcription initiation factor tfiid 105 kda subunit (tafii-105) (tafii105) (fragment). [swissprot;acc:q92750]
		Ranked
		Squared
		Rooted
2942	SS18	Measured	ssxt protein (synovial sarcoma, translocated to x chromosome) (syt protein). [swissprot;acc:q15532]
		Ranked
		Squared
		Rooted
2943	PRPSAP2	Measured	phosphoribosyl pyrophosphate synthetase-associated protein 2 (prpp synthetase-associated protein 2) (41 kda phosphoribosypyrophosphate synthetase-associated protein) (pap41). [swissprot;acc:o60256]
		Ranked
		Squared
		Rooted
2944	TIGD7	Measured	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]
		Ranked
		Squared
		Rooted
2945	TPM1	Measured	tropomyosin 1 alpha chain (alpha-tropomyosin). [swissprot;acc:p09493]
		Ranked
		Squared
		Rooted
2946	GTF2A2	Measured	transcription initiation factor iia gamma chain (tfiia p12 subunit) (tfiia-12) (tfiias) (tfiia-gamma). [swissprot;acc:p52657]

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.