Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Filtered	0
green	0.00001
Network Comparison Type	Divided

description	Value Type	Rank	network_comparison	Interaction Map	red	
brca1 associated protein. [source:refseq;acc:nm_006768]	Measured	502	1	High confidence	0.00001	
brca1 associated protein. [source:refseq;acc:nm_006768]	Ranked	502	1	High confidence	0.00001	
brca1 associated protein. [source:refseq;acc:nm_006768]	Squared	502	1	High confidence	0.00001	
brca1 associated protein. [source:refseq;acc:nm_006768]	Rooted	502	1	High confidence	0.00001	
carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615]	Measured	22	3700000	Low confidence	37	
carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615]	Squared	5	32402.4	Low confidence	0.324024	
carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615]	Rooted	6	608276	Low confidence	6.08276	
carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267]	Measured	23	3700000	Low confidence	37	
carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267]	Squared	6	32402.4	Low confidence	0.324024	
carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267]	Rooted	7	608276	Low confidence	6.08276	
cobw-like protein. [source:refseq;acc:nm_018491]	Measured	839	1	Low confidence	0.00001	
cobw-like protein. [source:refseq;acc:nm_018491]	Ranked	839	1	Low confidence	0.00001	
cobw-like protein. [source:refseq;acc:nm_018491]	Squared	839	1	Low confidence	0.00001	
cobw-like protein. [source:refseq;acc:nm_018491]	Rooted	839	1	Low confidence	0.00001	
dok-like protein. [source:refseq;acc:nm_024872]	Measured	31	3500000	High confidence	35	
dok-like protein. [source:refseq;acc:nm_024872]	Squared	13	28994.1	High confidence	0.289941	
dok-like protein. [source:refseq;acc:nm_024872]	Rooted	13	591608	High confidence	5.91608	
ero1-like. [source:refseq;acc:nm_014584]	Measured	20	8200000	High confidence	82	
ero1-like. [source:refseq;acc:nm_014584]	Squared	8	159148	High confidence	1.59148	
ero1-like. [source:refseq;acc:nm_014584]	Rooted	8	905539	High confidence	9.05539	
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	Measured	838	1	Low confidence	0.00001	
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	Ranked	838	1	Low confidence	0.00001	
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	Squared	838	1	Low confidence	0.00001	
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	Rooted	838	1	Low confidence	0.00001	
gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	Measured	841	1	Low confidence	0.00001	
gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	Ranked	841	1	Low confidence	0.00001	
gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	Squared	841	1	Low confidence	0.00001	
gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	Rooted	841	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	Measured	842	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	Ranked	842	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	Squared	842	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	Rooted	842	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	Measured	837	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	Ranked	837	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	Squared	837	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	Rooted	837	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	Measured	843	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	Ranked	843	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	Squared	843	1	Low confidence	0.00001	
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	Rooted	843	1	Low confidence	0.00001	
h2a histone family, member j isoform 1. [source:refseq;acc:nm_018267]	Measured	501	1	High confidence	0.00001	
h2a histone family, member j isoform 1. [source:refseq;acc:nm_018267]	Squared	501	1	High confidence	0.00001	
h2a histone family, member j isoform 1. [source:refseq;acc:nm_018267]	Rooted	501	1	High confidence	0.00001	
histone h2a.a (h2a/a) (h2a.2). [source:swissprot;acc:p28001]	Measured	495	1	High confidence	0.00001	
histone h2a.a (h2a/a) (h2a.2). [source:swissprot;acc:p28001]	Squared	495	1	High confidence	0.00001	
histone h2a.a (h2a/a) (h2a.2). [source:swissprot;acc:p28001]	Rooted	495	1	High confidence	0.00001	
histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [source:swissprot;acc:p02261]	Measured	494	1	High confidence	0.00001	
histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [source:swissprot;acc:p02261]	Squared	494	1	High confidence	0.00001	
histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [source:swissprot;acc:p02261]	Rooted	494	1	High confidence	0.00001	
histone h2a; h2a histone family, member r. [source:refseq;acc:nm_170745]	Measured	497	1	High confidence	0.00001	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/