Analysis of Asthma chr13
Analysis of Asthma chr13 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr13
Method: Md
Chromosome: 13
Genomic position start-stop: 36724808-61790545
length: 25065738
Band: q13.3-q21.31
 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 chr13. 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) PROTEIN: [NP_004120]
R-score = 0.000633; GO-score = 0.000356
36724808 bp Chromosome 13 61790545 bp
   
   
1 aa NP_036745 1057 aa

Similarity found to protein:
[24603|NP_036745] | Rattus norvegicus | natriuretic peptide receptor 1 | length=1057 aa
GO annotation:
0.000015 guanylate cyclase activity (function)
0.000004 protein kinase activity (function)
0.000004 protein serine/threonine kinase activity (function)
0.000004 protein-tyrosine kinase activity (function)
0.000008 receptor activity (function)
0.000015 binding (function)
0.000004 ATP binding (function)
0.000010 extracellular space (component)
0.000007 mitochondrial inner membrane (component)
0.000015 integral to plasma membrane (component)
0.000001 cGMP biosynthesis (process)
0.000004 protein amino acid phosphorylation (process)
0.000007 transport (process)
0.000023 cell surface receptor linked signal transduction (process)
0.000008 intracellular signaling cascade (process)
0.000356 fluid secretion (process)
0.000207 blood pressure regulation (process)
0.000020 peptide receptor activity, G-protein coupled (function)
0.000006 membrane (component)
0.000005 integral to membrane (component)
0.000000 negative regulation of angiogenesis (process)
0.000001 lyase activity (function)
0.000000 diuresis (process)
0.000000 natriuresis (process)
0.000000 negative regulation of cell growth (process)
0.000000 regulation of vasodilation (process)
0.000000 hormone binding (function)
0.000000 regulation of vascular permeability (process)
BLASTX hits:
E-value 2e-12 prot=965..1013 DNA=50482371..50482225 fr=1057 per=38/49 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_005758] [NP_065110]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.000805; GO-score = 0.000356
36724808 bp Chromosome 13 61790545 bp
   
   
1 aa NP_114438 359 aa

Similarity found to protein:
[185|NP_114438] | Homo sapiens | angiotensin II receptor, type 1 | length=359 aa
GO annotation:

0.000000 rhodopsin-like receptor activity (function)
0.000008 receptor activity (function)
0.000228 angiotensin type II receptor activity (function)
0.000108 bradykinin receptor activity (function)
0.000020 plasma membrane (component)
0.000015 integral to plasma membrane (component)
0.000017 signal transduction (process)
0.000032 G-protein coupled receptor protein signaling pathway (process)
0.000104 G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) (process)
0.000061 elevation of cytosolic calcium ion concentration (process)
0.000356 fluid secretion (process)
0.000043 circulation (process)
0.000005 integral to membrane (component)
0.000000 C-X-C chemokine receptor activity (function)
BLASTX hits:
E-value 2e-35 prot=25..304 DNA=47884522..47883683 fr=359 per=85/281 [EST] [P]
E-value 3e-25 prot=25..326 DNA=48179058..48179945 fr=359 per=98/307 [EST] [P]
CANDIDATE 3
DNA (Note)
R-score = 0.001151; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_058044 274 aa

Similarity found to protein:
[53381|NP_058044] | Mus musculus | peroxiredoxin 4 | length=274 aa
GO annotation:
0.000002 biological process unknown (process)
0.000291 peroxidase activity (function)
0.000002 molecular function unknown (function)
0.000010 extracellular space (component)
0.000018 mitochondrion (component)
0.000000 antioxidant activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 3e-20 prot=72..272 DNA=38090189..38089569 fr=274 per=78/209 [EST]
CANDIDATE 4
DNA (Note)
R-score = 0.001323; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
   
1 aa NP_005800 198 aa

Similarity found to protein:
[7001|NP_005800] | Homo sapiens | peroxiredoxin 2 isoform c | length=198 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000003 electron transporter activity (function)
0.000005 cytoplasm (component)
0.000045 response to oxidative stress (process)
0.000021 thioredoxin peroxidase activity (function)
0.000000 oxidoreductase activity (function)
0.000000 regulation of apoptosis (process)
BLASTX hits:
E-value 1e-18 prot=15..196 DNA=38090117..38089569 fr=198 per=71/185 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.001496; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_524387 234 aa

Similarity found to protein:
[42109|NP_524387] | Drosophila melanogaster | Peroxiredoxin 5037 CG5826-PA | length=234 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000018 mitochondrion (component)
0.000008 oxygen and reactive oxygen species metabolism (process)
0.000018 defense response (process)
0.000021 thioredoxin peroxidase activity (function)
0.000000 antioxidant activity (function)
0.000000 cell redox homeostasis (process)
BLASTX hits:
E-value 1e-19 prot=49..232 DNA=38090117..38089569 fr=234 per=72/187 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.001611; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_477510 194 aa

Similarity found to protein:
[53578|NP_477510] | Drosophila melanogaster | thioredoxin peroxidase 1 CG1633-PB | length=194 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000028 glutathione peroxidase activity (function)
0.000006 cytosol (component)
0.000008 oxygen and reactive oxygen species metabolism (process)
0.000018 defense response (process)
0.000021 thioredoxin peroxidase activity (function)
0.000000 antioxidant activity (function)
0.000000 cell redox homeostasis (process)
BLASTX hits:
E-value 6e-20 prot=11..194 DNA=38090117..38089563 fr=194 per=72/187 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.002301; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_031478 257 aa

Similarity found to protein:
[11757|NP_031478] | Mus musculus | peroxiredoxin 3 | length=257 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000010 extracellular space (component)
0.000018 mitochondrion (component)
0.000000 antioxidant activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 1e-35 prot=72..257 DNA=38090120..38089560 fr=257 per=95/189 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.002359; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
   
1 aa NP_058865 198 aa

Similarity found to protein:
[29338|NP_058865] | Rattus norvegicus | peroxiredoxin 2 | length=198 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000003 electron transporter activity (function)
0.000005 cytoplasm (component)
0.000008 oxygen and reactive oxygen species metabolism (process)
0.000017 anti-apoptosis (process)
0.000045 response to oxidative stress (process)
0.000021 thioredoxin peroxidase activity (function)
0.000006 selenium binding (function)
0.000000 antioxidant activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 2e-20 prot=15..196 DNA=38090117..38089569 fr=198 per=73/185 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.002704; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_006784 256 aa

Similarity found to protein:
[10935|NP_006784] | Homo sapiens | peroxiredoxin 3 isoform b | length=256 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000018 mitochondrion (component)
0.000000 IkappaB kinase complex (component)
0.000001 alkyl hydroperoxide reductase activity (function)
0.000000 oxidoreductase activity (function)
0.000000 protein kinase binding (function)
0.000000 activation of NF-kappaB transcription factor (process)
BLASTX hits:
E-value 1e-35 prot=71..256 DNA=38090120..38089560 fr=256 per=95/189 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.003107; GO-score = 0.000291
36724808 bp Chromosome 13 61790545 bp
   
  
1 aa NP_002565 199 aa

Similarity found to protein:
[5052|NP_002565] | Homo sapiens | peroxiredoxin 1 | length=199 aa
GO annotation:
0.000006 skeletal development (process)
0.000291 peroxidase activity (function)
0.000008 cell proliferation (process)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 3e-19 prot=15..198 DNA=38090117..38089566 fr=199 per=72/187 [EST]