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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 1 to 32 of 32 in total

Rank  : 8

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

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.