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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 5858 to 5907 of 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	description	red	green	network_comparison
2929	Subtracted	lysosomal trafficking regulator (beige homolog). [swissprot;acc:q99698]	0	0	0
2930	Divided	interleukin enhancer binding factor 2; nuclear factor of activated t-cells, 45-kda. [refseq;acc:nm_004515]	0.00001	0.00001	1
	Subtracted		0	0	0
2931	Divided	tropomyosin alpha 3 chain (tropomyosin 3) (tropomyosin gamma). [swissprot;acc:p06753]	0.00001	0.00001	1
	Subtracted		0	0	0
2932	Divided	pogo transposable element with znf domain isoform 1. [refseq;acc:nm_015100]	0.00001	0.00001	1
	Subtracted		0	0	0
2933	Divided	semaphorin 6c precursor (semaphorin y) (sema y). [swissprot;acc:q9h3t2]	0.00001	0.00001	1
	Subtracted		0	0	0
2934	Divided	protoporphyrinogen oxidase (ec 1.3.3.4) (ppo). [swissprot;acc:p50336]	0.00001	0.00001	1
	Subtracted		0	0	0
2935	Divided	putative membrane protein. [refseq;acc:nm_019026]	0.00001	0.00001	1
	Subtracted		0	0	0
2936	Divided	retinoic acid receptor rxr-gamma. [swissprot;acc:p48443]	0.00001	0.00001	1
	Subtracted		0	0	0
2937	Divided	similar to mob-lak. [refseq;acc:nm_145279]	0.00001	0.00001	1
	Subtracted		0	0	0
2938	Divided	cyr61 protein precursor (cysteine-rich, angiogenic inducer, 61) (insulin-like growth factor-binding protein 10) (gig1 protein). [swissprot;acc:o00622]	0.00001	0.00001	1
	Subtracted		0	0	0
2939	Divided	fibrillin 3. [refseq;acc:nm_032447]	0.00001	0.00001	1
	Subtracted		0	0	0
2940	Divided	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	0.00001	0.00001	1
	Subtracted		0	0	0
2941	Divided	transcription initiation factor tfiid 105 kda subunit (tafii-105) (tafii105) (fragment). [swissprot;acc:q92750]	0.00001	0.00001	1
	Subtracted		0	0	0
2942	Divided	ssxt protein (synovial sarcoma, translocated to x chromosome) (syt protein). [swissprot;acc:q15532]	0.00001	0.00001	1
	Subtracted		0	0	0
2943	Divided	phosphoribosyl pyrophosphate synthetase-associated protein 2 (prpp synthetase-associated protein 2) (41 kda phosphoribosypyrophosphate synthetase-associated protein) (pap41). [swissprot;acc:o60256]	0.00001	0.00001	1
	Subtracted		0	0	0
2944	Divided	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	0.00001	0.00001	1
	Subtracted		0	0	0
2945	Divided	tropomyosin 1 alpha chain (alpha-tropomyosin). [swissprot;acc:p09493]	0.00001	0.00001	1
	Subtracted		0	0	0
2946	Divided	transcription initiation factor iia gamma chain (tfiia p12 subunit) (tfiia-12) (tfiias) (tfiia-gamma). [swissprot;acc:p52657]	0.00001	0.00001	1
	Subtracted		0	0	0
2947	Divided	small edrk-rich factor 2. [refseq;acc:nm_005770]	0.00001	0.00001	1
	Subtracted		0	0	0
2948	Divided	transcription factor 12 (transcription factor htf-4) (e-box-binding protein) (dna-binding protein htf4). [swissprot;acc:q99081]	0.00001	0.00001	1
	Subtracted		0	0	0
2949	Divided	microfibrillar-associated protein 1. [swissprot;acc:p55081]	0.00001	0.00001	1
	Subtracted		0	0	0
2950	Divided	bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	0.00001	0.00001	1
	Subtracted		0	0	0
2951	Divided	integrin beta-7 precursor. [swissprot;acc:p26010]	0.00001	0.00001	1
	Subtracted		0	0	0
2952	Divided	serine/threonine-protein kinase receptor r3 precursor (ec 2.7.1.37) (skr3) (activin receptor-like kinase 1) (alk-1) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:p37023]	0.00001	0.00001	1
	Subtracted		0	0	0
2953	Divided	glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	0.00001	0.00001	1
	Subtracted		0	0	0
2954	Divided	nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795]	0.00001	0.00001	1

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.