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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 32 of 32 in total

Rank  : 8

Filtered	green	Value Type	network_comparison	Network Comparison Type	Interaction Map	red	description
0	0.00001	Squared	159148	Divided	High confidence	1.59148	ero1-like. [refseq;acc:nm_014584]
		Rooted	360555		Low confidence	3.60555	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
			905539		High confidence	9.05539	ero1-like. [refseq;acc:nm_014584]
	43	Measured	4300000			0.00001	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
	56.7758	Rooted	15.3379	Subtracted		72.1137	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]
	111.067		15.292		Low confidence	126.359	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]
	6410	Measured	75.4118	Divided		85	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]
	7500.75		2393.82	Subtracted	High confidence	5106.93	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]
	8770.72		1232.83		Low confidence	7537.89	zinc finger protein 277. [swissprot;acc:q9nrm2]
	13216	Ranked	1.68629	Divided		22286	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
			9070	Subtracted	High confidence		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
	19295.9	Squared	11098	Divided	Low confidence	1.73869	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]
	19873	Ranked	8983.6	Subtracted		10889.4	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]
	21888		1.89918	Divided	High confidence	11525	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
	61843.5	Squared	16419.5	Subtracted	Low confidence	45424	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]
	386144		28560		High confidence	414704	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]
1	18.4255	Rooted	1.84327	Divided		33.9632	db83 protein. [swissprot;acc:p57088]
	27.2805	Squared	11.544			314.926
	45.9728	Rooted	18.8343	Subtracted	Low confidence	27.1385	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3]
	47.6922		1.49674	Divided		31.8641	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]
	168.796		23.245	Subtracted	High confidence	145.551	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]
	240	Ranked	1.325	Divided	Low confidence	318	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]
	247.246		58.226	Subtracted		305.472	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]
	322		1.49767	Divided	High confidence	215	hbs1-like. [refseq;acc:nm_006620]
	339.5	Measured	3.39764			1153.5	db83 protein. [swissprot;acc:p57088]
	362	Ranked	74	Subtracted		288	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]
	5058.5	Measured	1.54317	Divided	Low confidence	3278	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]
	6056.43	Squared	2.38136			2543.26
	28492	Measured	7307	Subtracted	High confidence	21185	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]
	39358.1		6246.7		Low confidence	33111.4	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]
	192141	Squared	85915			106226	mitochondrial solute carrier protein. [refseq;acc:nm_145305]
	354894		104591		High confidence	250303	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]

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.