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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1658 to 1707 of 2060 in total

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

Rank	Hugo	description	Value Type
3170	EVI1	ecotropic virus integration 1 site protein. [swissprot;acc:q03112]	Ranked
			Squared
			Rooted
3171	CCNT2	cyclin t2. [swissprot;acc:o60583]	Measured
			Ranked
			Squared
			Rooted
3172	LIPE	hormone sensitive lipase (ec 3.1.1.-) (hsl). [swissprot;acc:q05469]	Measured
			Ranked
			Squared
			Rooted
3173	PIK3C3	phosphoinositide-3-kinase, class 3; vps34; phosphatidylinositol 3-kinase, class 3. [refseq;acc:nm_002647]	Measured
			Ranked
			Squared
			Rooted
3174	TM9SF3	transmembrane 9 superfamily protein member 3 precursor (sm-11044 binding protein) (ep70-p-iso). [swissprot;acc:q9hd45]	Measured
			Ranked
			Squared
			Rooted
3175	TUBA3D	tubulin alpha-3/alpha-7 chain (alpha-tubulin 3/7). [swissprot;acc:p05214]	Measured
			Ranked
			Squared
			Rooted
3176	SLC25A3	phosphate carrier protein, mitochondrial precursor (ptp). [swissprot;acc:q00325]	Measured
			Ranked
			Squared
			Rooted
3177	LMAN1	ergic-53 protein precursor (er-golgi intermediate compartment 53 kda protein) (lectin, mannose-binding 1) (gp58) (intracellular mannose specific lectin mr60). [swissprot;acc:p49257]	Measured
			Ranked
			Squared
			Rooted
3178	no value	transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084]	Measured
			Ranked
			Squared
			Rooted
3179	DERL2	carcinoma related gene. [refseq;acc:nm_016041]	Measured
			Ranked
			Squared
			Rooted
3180	HSD17B10	3-hydroxyacyl-coa dehydrogenase type ii (ec 1.1.1.35) (type ii hadh) (endoplasmic reticulum-associated amyloid beta-peptide binding protein) (short-chain type dehydrogenase/reductase xh98g2). [swissprot;acc:q99714]	Measured
			Ranked
			Squared
			Rooted
3181	ALDH3A2	fatty aldehyde dehydrogenase (ec 1.2.1.3) (aldehyde dehydrogenase, microsomal) (aldh class 3). [swissprot;acc:p51648]	Measured
			Ranked
			Squared
			Rooted
3182	TCF3	transcription factor e2-alpha (immunoglobulin enhancer binding factor e12/e47) (transcription factor-3) (tcf-3) (immunoglobulin transcription factor-1) (transcription factor itf-1) (kappa-e2-binding factor). [swissprot;acc:p15923]	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.