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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1001 to 1050 of 1923 in total

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

Rank	Value Type	description
2998	Ranked	fyve-finger-containing rab5 effector protein rabenosyn-5. [refseq;acc:nm_022340]
	Squared
	Rooted
2999	Measured	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]
	Ranked
	Squared
	Rooted
3000	Measured	myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]
	Ranked
	Squared
	Rooted
3001	Measured	ubiquitin-like protein nedd8. [swissprot;acc:q15843]
	Ranked
	Squared
	Rooted
3002	Measured	cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]
	Ranked
	Squared
	Rooted
3003	Measured	testis specific leucine rich repeat protein. [refseq;acc:nm_012472]
	Ranked
	Squared
	Rooted
3004	Measured	small nuclear ribonucleoprotein associated protein n (snrnp-n) (sm protein n) (sm-n) (smn) (sm-d) (tissue-specific splicing protein). [swissprot;acc:p14648]
	Ranked
	Squared
	Rooted
3005	Measured	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]
	Ranked
	Squared
	Rooted
3006	Measured	dgcr8 protein (digeorge syndrome critical region 8). [swissprot;acc:q8wyq5]
	Ranked
	Squared
	Rooted
3007	Measured	glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]
	Ranked
	Squared
	Rooted
3008	Measured	nuclear pore complex protein nup214 (nucleoporin nup214) (214 kda nucleoporin) (can protein). [swissprot;acc:p35658]
	Ranked
	Squared
	Rooted
3009	Measured	cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]
	Ranked
	Squared
	Rooted
3010	Measured	uroporphyrinogen decarboxylase (ec 4.1.1.37) (uro-d) (upd). [swissprot;acc:p06132]
	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
- 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.