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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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 description network_comparison Rank Gene 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

Value Type	description	network_comparison	Rank	Interaction Map	red	
Measured	brca1 associated protein. [source:refseq;acc:nm_006768]	1	502	High confidence	0.00001	
Measured	carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615]	3700000	22	Low confidence	37	
Measured	carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267]	3700000	23	Low confidence	37	
Measured	cobw-like protein. [source:refseq;acc:nm_018491]	1	839	Low confidence	0.00001	
Measured	dok-like protein. [source:refseq;acc:nm_024872]	3500000	31	High confidence	35	
Measured	ero1-like. [source:refseq;acc:nm_014584]	8200000	20	High confidence	82	
Measured	gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	1	838	Low confidence	0.00001	
Measured	gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	1	841	Low confidence	0.00001	
Measured	gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	1	842	Low confidence	0.00001	
Measured	gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	1	837	Low confidence	0.00001	
Measured	gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	1	843	Low confidence	0.00001	
Measured	h2a histone family, member j isoform 1. [source:refseq;acc:nm_018267]	1	501	High confidence	0.00001	
Measured	histone h2a.a (h2a/a) (h2a.2). [source:swissprot;acc:p28001]	1	495	High confidence	0.00001	
Measured	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]	1	494	High confidence	0.00001	
Measured	histone h2a; h2a histone family, member r. [source:refseq;acc:nm_170745]	1	497	High confidence	0.00001	
Measured	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099]	1	499	High confidence	0.00001	
Measured	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099]	1300000	6	Low confidence	13	
Measured	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	36400000	1	High confidence	364	
Measured	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	36400000	1	Low confidence	364	
Measured	mitochondrial 28s ribosomal protein s6 (mrp-s6). [source:swissprot;acc:p82932]	1	496	High confidence	0.00001	
Measured	neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [source:swissprot;acc:p46531]	28600000	44	Low confidence	286	
Measured	neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [source:swissprot;acc:q04721]	28600000	45	Low confidence	286	
Measured	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [source:swissprot;acc:q9bzk7]	15400000	95	High confidence	154	
Measured	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [source:refseq;acc:nm_007372]	1800000	65	High confidence	18	
Measured	rwd domain containing 1; ptd013 protein; cgi-24 protein. [source:refseq;acc:nm_015952]	1	500	High confidence	0.00001	
Measured	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [source:refseq;acc:nm_032517]	6000000	22	High confidence	60	
Measured	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [source:refseq;acc:nm_007063]	231962	7	Low confidence	2.31962	
Measured	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [source:swissprot;acc:q9bq87]	15400000	96	High confidence	154	
Measured	translin-associated protein x (translin-associated factor x). [source:swissprot;acc:q99598]	1	498	High confidence	0.00001	
Measured	translin-associated protein x (translin-associated factor x). [source:swissprot;acc:q99598]	1	840	Low confidence	0.00001	
Ranked	brca1 associated protein. [source:refseq;acc:nm_006768]	1	502	High confidence	0.00001	
Ranked	cobw-like protein. [source:refseq;acc:nm_018491]	1	839	Low confidence	0.00001	
Ranked	gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	1	838	Low confidence	0.00001	
Ranked	gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	1	841	Low confidence	0.00001	
Ranked	gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	1	842	Low confidence	0.00001	
Ranked	gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	1	837	Low confidence	0.00001	
Ranked	gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	1	843	Low confidence	0.00001	
Ranked	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099]	1	501	High confidence	0.00001	
Squared	brca1 associated protein. [source:refseq;acc:nm_006768]	1	502	High confidence	0.00001	
Squared	carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615]	32402.4	5	Low confidence	0.324024	
Squared	carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267]	32402.4	6	Low confidence	0.324024	
Squared	cobw-like protein. [source:refseq;acc:nm_018491]	1	839	Low confidence	0.00001	
Squared	dok-like protein. [source:refseq;acc:nm_024872]	28994.1	13	High confidence	0.289941	
Squared	ero1-like. [source:refseq;acc:nm_014584]	159148	8	High confidence	1.59148	
Squared	gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [source:refseq;acc:nm_080920]	1	838	Low confidence	0.00001	
Squared	gamma-glutamyltransferase. [source:sptrembl;acc:q14390]	1	841	Low confidence	0.00001	
Squared	gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [source:swissprot;acc:p19440]	1	842	Low confidence	0.00001	
Squared	gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [source:swissprot;acc:p36268]	1	837	Low confidence	0.00001	
Squared	gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [source:swissprot;acc:p36269]	1	843	Low confidence	0.00001	
Squared	h2a histone family, member j isoform 1. [source:refseq;acc:nm_018267]	1	501	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/