Analysis of Asthma chr6
Analysis of Asthma chr6 G2D Home
GO TO:
REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr6
Method: Md
Chromosome: 6
Genomic position start-stop: 10083359-25354485
length: 15271127
Band: p24.3-p22.2
 LINKS

EntrezGene: no link

MEDLINE:

OMIM: no link

REASONS FOR ASSOCIATION

MEDLINE QUERY
A set of 4317 papers related to asthma was derived from MEDLINE using the query:
Asthma [MH] AND Case Report [MH]

MESH-C TERMS
The MeSH-C terms associated to the derived papers were collected and manually filtered.

Here you can see the terms ordered by the fraction of papers where they were found.

Asthma [0.957365269461078]
Status Asthmaticus [0.0548502994011976]
Drug Hypersensitivity [0.0431137724550898]
Bronchial Spasm [0.0304191616766467]
Eosinophilia [0.0297005988023952]
Bronchitis [0.0239520958083832]
Airway Obstruction [0.0239520958083832]
Rhinitis [0.0208383233532934]
Food Hypersensitivity [0.0205988023952096]
Anaphylaxis [0.0203592814371257]
We show here only the 10 most frequent. You can also see the complete list of 50 MeSH-C terms.

Each name is linked to the corresponding term description by the NLM. The number in brackets is linked to the list of papers that contained the term. The points to the related MeSH-D terms.

 GO terms
We computed the GO terms associated to the MeSH-C terms selected for this disease.

Here you can see those with higher score of association.

0.000797 peptidyl-dipeptidase activity (function)
0.000404 interleukin-5 receptor activity (function)
0.000356 fluid secretion (process)
0.000291 peroxidase activity (function)
0.000283 protein kinase inhibitor activity (function)
0.000261 pancreatic elastase activity (function)
0.000233 leukotriene-C4 synthase activity (function)
0.000230 renin activity (function)
0.000230 cathepsin D activity (function)
0.000228 angiotensin type II receptor activity (function)
We show here only the top 10. You can also see the complete list of 2490 GO terms.

Each name is linked to the corresponding term description by GO. The number indicates the strength of association to Asthma chr6. The points to the related MeSH-D terms.
Follow the green arrows to navigate MeSH-C / MeSH-D / GO-terms relationship derived from our analysis of the whole MEDLINE database, and used to relate the phenotype of this disease to terms of gene functionality.

OVERVIEW OF CANDIDATES IN THE REGION

The graph represents the BLASTX hits found in the region and the genes predicted or known in the region.

Legend:
BLASTX hits RefSeq genes Ensembl genes
                                                                                                                   
> 1e-10 > 1e-20 > 1e-50 > 1e-80 > 1e-100 > 0
                                                         
                                               

Graph with GO scoring vs genomic position [PostScript graphic]

BEST SCORING 10 CANDIDATES
Here we show only the best scoring ten candidates but there are more. You can see the best scoring 100 candidates.

What is in a candidate?

CANDIDATE 1
DNA (Note)
R-score = 0.006789; GO-score = 0.000207
10083359 bp Chromosome 6 25354485 bp
   
    
1 aa NP_001946 212 aa

Similarity found to protein:
[1906|NP_001946] | Homo sapiens | endothelin 1 | length=212 aa
GO annotation:
0.000041 hormone activity (function)
0.000010 extracellular space (component)
0.000008 soluble fraction (component)
0.000017 signal transduction (process)
0.000019 cell-cell signaling (process)
0.000207 blood pressure regulation (process)
0.000007 positive regulation of cell proliferation (process)
0.000012 pathogenesis (process)
0.000000 regulation of vasoconstriction (process)
BLASTX hits:
E-value 6e-23 prot=79..130 DNA=12401561..12401716 fr=212 per=52/52 [EST]
E-value 1e-17 prot=22..100 DNA=12399959..12400192 fr=212 per=64/79 [EST]
E-value 3e-11 prot=178..212 DNA=12403579..12403683 fr=212 per=34/35 [EST]
CANDIDATE 2
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.022726; GO-score = 0.000094
10083359 bp Chromosome 6 25354485 bp
   
     
1 aa NP_536783 798 aa

Similarity found to protein:
[45826|NP_536783] | Drosophila melanogaster | belle CG9748-PA | length=798 aa
GO annotation:

0.000000 nucleic acid binding (function)
0.000006 ATP-dependent RNA helicase activity (function)
0.000004 ATP binding (function)
0.000003 nucleobase, nucleoside, nucleotide and nucleic acid metabolism (process)
0.000094 spermatid development (process)
0.000000 ATP-dependent helicase activity (function)
BLASTX hits:
E-value 5e-23 prot=385..652 DNA=18472869..18472087 fr=798 per=86/273 [EST] [P]
E-value 5e-23 prot=335..364 DNA=18472981..18472892 fr=798 per=15/30 [EST] [P]
CANDIDATE 3
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.023589; GO-score = 0.000093
10083359 bp Chromosome 6 25354485 bp
   
    
1 aa NP_005908 334 aa

Similarity found to protein:
[4190|NP_005908] | Homo sapiens | cytosolic malate dehydrogenase | length=334 aa
GO annotation:

0.000093 L-lactate dehydrogenase activity (function)
0.000002 malic enzyme activity (function)
0.000006 cytosol (component)
0.000050 glycolysis (process)
0.000061 tricarboxylic acid cycle (process)
0.000005 malate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 L-malate dehydrogenase activity (function)
BLASTX hits:
E-value 5e-95 prot=1..185 DNA=16215833..16216366 fr=334 per=130/185 [EST] [P]
E-value 5e-95 prot=183..281 DNA=16216359..16216649 fr=334 per=68/99 [EST] [P]
E-value 5e-95 prot=293..320 DNA=16216682..16216765 fr=334 per=23/28 [EST] [P]
CANDIDATE 4
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.023762; GO-score = 0.000093
10083359 bp Chromosome 6 25354485 bp
   
    
1 aa NP_032644 334 aa

Similarity found to protein:
[17449|NP_032644] | Mus musculus | malate dehydrogenase, soluble | length=334 aa
GO annotation:

0.000093 L-lactate dehydrogenase activity (function)
0.000006 cytosol (component)
0.000050 glycolysis (process)
0.000061 tricarboxylic acid cycle (process)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000005 malate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 malate dehydrogenase activity (function)
0.000000 L-malate dehydrogenase activity (function)
BLASTX hits:
E-value 2e-95 prot=1..185 DNA=16215833..16216366 fr=334 per=129/185 [EST] [P]
E-value 2e-95 prot=183..281 DNA=16216359..16216649 fr=334 per=68/99 [EST] [P]
E-value 2e-95 prot=293..320 DNA=16216682..16216765 fr=334 per=23/28 [EST] [P]
CANDIDATE 5
DNA (Note) PROTEIN: [NP_003098]
R-score = 0.031759; GO-score = 0.000081
10083359 bp Chromosome 6 25354485 bp
   
   
1 aa NP_599117 669 aa

Similarity found to protein:
[37822|NP_599117] | Drosophila melanogaster | Sox14-P1 CG3090-PB | length=669 aa
GO annotation:
0.000004 transcription factor activity (function)
0.000003 nucleus (component)
0.000005 regulation of transcription from RNA polymerase II promoter (process)
0.000005 ectoderm development (process)
0.000007 nervous system development (process)
0.000002 mesoderm development (process)
0.000000 sex determination (process)
0.000081 hemopoiesis (process)
0.000000 regulation of transcription (process)
BLASTX hits:
E-value 4e-26 prot=181..261 DNA=21702902..21703144 fr=669 per=57/81 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.032564; GO-score = 0.000081
10083359 bp Chromosome 6 25354485 bp
   
   
1 aa NP_477108 504 aa

Similarity found to protein:
[34277|NP_477108] | Drosophila melanogaster | gcm-P1 CG12245-PA | length=504 aa
GO annotation:
0.000003 DNA binding (function)
0.000004 transcription factor activity (function)
0.000003 nucleus (component)
0.000005 regulation of transcription, DNA-dependent (process)
0.000018 defense response (process)
0.000005 ectoderm development (process)
0.000000 glial cell fate determination (process)
0.000003 hemocyte development (sensu Arthropoda) (process)
0.000008 cell proliferation (process)
0.000000 glial cell differentiation (process)
0.000000 dendrite morphogenesis (process)
0.000081 hemopoiesis (process)
0.000000 embryonic plasmatocyte differentiation (process)
0.000000 lymph gland plasmatocyte differentiation (process)
0.000000 gliogenesis (process)
0.000000 plasmatocyte differentiation (process)
0.000000 crystal cell differentiation (process)
0.000000 regulation of transcription (process)
BLASTX hits:
E-value 4e-23 prot=47..128 DNA=10985099..10984854 fr=504 per=50/82 [EST]
CANDIDATE 7
DNA (Note) PROTEIN: [NP_612641]
R-score = 0.042978; GO-score = 0.000065
10083359 bp Chromosome 6 25354485 bp
   
   
1 aa NP_057157 203 aa

Similarity found to protein:
[50810|NP_057157] | Homo sapiens | hepatoma-derived growth factor, related protein 3 | length=203 aa
GO annotation:
0.000065 chromatin binding (function)
0.000003 nucleus (component)
0.000007 growth factor activity (function)
0.000008 cell proliferation (process)
BLASTX hits:
E-value 3e-29 prot=9..173 DNA=22677809..22678270 fr=203 per=75/165 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.050975; GO-score = 0.000064
10083359 bp Chromosome 6 25354485 bp
   
    
1 aa NP_112534 299 aa

Similarity found to protein:
[23408|NP_112534] | Homo sapiens | sirtuin 5 isoform 2 | length=299 aa
GO annotation:
0.000003 DNA binding (function)
0.000064 NAD+ ADP-ribosyltransferase activity (function)
0.000000 chromatin silencing complex (component)
0.000049 chromatin silencing (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000056 protein amino acid ADP-ribosylation (process)
0.000002 hydrolase activity (function)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 4e-37 prot=83..159 DNA=13699227..13699457 fr=299 per=77/77 [EST]
E-value 4e-18 prot=206..249 DNA=13706591..13706722 fr=299 per=44/44 [EST]
E-value 3e-17 prot=12..83 DNA=13695846..13696025 fr=299 per=51/72 [EST]
E-value 9e-13 prot=1..39 DNA=13691672..13691788 fr=299 per=39/39 [EST]
E-value 6e-12 prot=248..287 DNA=13708395..13708514 fr=299 per=38/40 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.077671; GO-score = 0.000048
10083359 bp Chromosome 6 25354485 bp
  
       
1 aa NP_037281 853 aa

Similarity found to protein:
[25690|NP_037281] | Rattus norvegicus | aryl hydrocarbon receptor | length=853 aa
GO annotation:
0.000003 DNA binding (function)
0.000004 transcription factor activity (function)
0.000012 signal transducer activity (function)
0.000008 receptor activity (function)
0.000048 ligand-dependent nuclear receptor activity (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000003 transcription factor complex (component)
0.000005 cytoplasm (component)
0.000005 regulation of transcription, DNA-dependent (process)
0.000003 transcription from RNA polymerase II promoter (process)
0.000004 xenobiotic metabolism (process)
0.000029 apoptosis (process)
0.000005 response to stress (process)
0.000006 cell cycle (process)
0.000017 signal transduction (process)
0.000000 response to xenobiotic stimulus (process)
BLASTX hits:
E-value 7e-34 prot=210..464 DNA=25327556..25328368 fr=853 per=84/281 [EST]
E-value 1e-11 prot=17..151 DNA=25326896..25327279 fr=853 per=56/136 [EST]
E-value 7e-34 prot=503..787 DNA=25328482..25329279 fr=853 per=88/298 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.078189; GO-score = 0.000048
10083359 bp Chromosome 6 25354485 bp
  
         
1 aa NP_001612 848 aa

Similarity found to protein:
[196|NP_001612] | Homo sapiens | aryl hydrocarbon receptor | length=848 aa
GO annotation:
0.000004 transcription factor activity (function)
0.000048 ligand-dependent nuclear receptor activity (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000005 regulation of transcription, DNA-dependent (process)
0.000003 transcription from RNA polymerase II promoter (process)
0.000029 apoptosis (process)
0.000005 response to stress (process)
0.000006 cell cycle (process)
0.000017 signal transduction (process)
0.000000 response to xenobiotic stimulus (process)
BLASTX hits:
E-value 1e-42 prot=212..466 DNA=25327556..25328368 fr=848 per=93/281 [EST]
E-value 1e-42 prot=476..780 DNA=25328386..25329279 fr=848 per=96/324 [EST]
E-value 1e-11 prot=18..153 DNA=25326896..25327279 fr=848 per=58/137 [EST]
E-value 1e-42 prot=815..830 DNA=25329363..25329410 fr=848 per=10/16 [EST]