Analysis of Asthma chr13
Analysis of Asthma chr13 G2D Home
GO TO:
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: 99248792-113248792
length: 14000001
Band: q32.3-q34
 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)
R-score = 0.007767; GO-score = 0.000207
99248792 bp Chromosome 13 113248792 bp
   
  
1 aa NP_006578 1042 aa

Similarity found to protein:
[10699|NP_006578] | Homo sapiens | corin | length=1042 aa
GO annotation:
0.000044 serine-type endopeptidase activity (function)
0.000006 scavenger receptor activity (function)
0.000020 plasma membrane (component)
0.000015 integral to plasma membrane (component)
0.000023 proteolysis (process)
0.000013 lipid metabolism (process)
0.000207 blood pressure regulation (process)
0.000019 peptidase activity (function)
0.000001 morphogenesis (process)
BLASTX hits:
E-value 1e-11 prot=879..1034 DNA=112845690..112846163 fr=1042 per=51/162 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_009060] [NP_149123]
R-score = 0.011794; GO-score = 0.000164
99248792 bp Chromosome 13 113248792 bp
   
 
1 aa NP_033599 447 aa

Similarity found to protein:
[22771|NP_033599] | Mus musculus | zinc finger protein of the cerebellum 1 | length=447 aa
GO annotation:
0.000000 nucleic acid binding (function)
0.000003 DNA binding (function)
0.000003 nucleus (component)
0.000006 development (process)
0.000007 nervous system development (process)
0.000005 central nervous system development (process)
0.000164 behavior (process)
0.000003 zinc ion binding (function)
0.000014 cell differentiation (process)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 1e-108 prot=1..330 DNA=99432321..99433403 fr=447 per=222/364 [EST]
E-value 4e-55 prot=213..328 DNA=99420782..99420381 fr=447 per=101/134 [EST]
E-value 9e-27 prot=327..383 DNA=99435198..99435368 fr=447 per=56/57 [EST]
E-value 3e-25 prot=328..447 DNA=99416076..99415750 fr=447 per=67/122 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_005552]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.015362; GO-score = 0.000124
99248792 bp Chromosome 13 113248792 bp
     
   
1 aa NP_112734 1424 aa

Similarity found to protein:
[1285|NP_112734] | Homo sapiens | alpha 3 type IV collagen isoform 5, precursor | length=1424 aa
GO annotation:

0.000124 serine carboxypeptidase activity (function)
0.000010 integrin binding (function)
0.000041 extracellular matrix structural constituent (function)
0.000005 protein binding (function)
0.000014 collagen (component)
0.000010 collagen type IV (component)
0.000005 cytoplasm (component)
0.000023 proteolysis (process)
0.000000 phosphate transport (process)
0.000015 induction of apoptosis (process)
0.000006 caspase activation (process)
0.000013 cell adhesion (process)
0.000023 cell surface receptor linked signal transduction (process)
0.000005 sensory perception of sound (process)
0.000043 circulation (process)
0.000017 metalloendopeptidase inhibitor activity (function)
0.000008 cell proliferation (process)
0.000005 negative regulation of cell proliferation (process)
0.000000 negative regulation of angiogenesis (process)
BLASTX hits:
E-value 2e-13 prot=709..805 DNA=109621773..109621501 fr=1424 per=34/101 [EST] [P]
E-value 3e-13 prot=167..198 DNA=109621415..109621320 fr=1424 per=19/32 [EST] [P]
E-value 9e-14 prot=781..874 DNA=109621779..109621486 fr=1424 per=36/103 [EST] [P]
E-value 9e-14 prot=702..740 DNA=109621969..109621841 fr=1424 per=21/43 [EST] [P]
E-value 6e-12 prot=167..201 DNA=109621948..109621844 fr=1424 per=19/35 [EST] [P]
E-value 3e-11 prot=417..459 DNA=109621969..109621841 fr=1424 per=25/47 [EST] [P]
E-value 6e-12 prot=233..318 DNA=109621728..109621504 fr=1424 per=32/90 [EST] [P]
E-value 2e-13 prot=664..698 DNA=109621969..109621853 fr=1424 per=20/39 [EST] [P]
E-value 3e-13 prot=99..157 DNA=109621731..109621522 fr=1424 per=29/70 [EST] [P]
E-value 3e-11 prot=550..581 DNA=109621415..109621320 fr=1424 per=17/32 [EST] [P]
E-value 9e-14 prot=890..922 DNA=109621418..109621320 fr=1424 per=17/33 [EST] [P]
E-value 3e-13 prot=57..104 DNA=109621969..109621841 fr=1424 per=23/49 [EST] [P]
E-value 2e-13 prot=836..877 DNA=109621412..109621320 fr=1424 per=19/42 [EST] [P]
E-value 6e-12 prot=344..381 DNA=109621433..109621320 fr=1424 per=16/38 [EST] [P]
E-value 3e-11 prot=459..558 DNA=109621779..109621471 fr=1424 per=34/110 [EST] [P]
E-value 1e-22 prot=186..751 DNA=113010133..113011698 fr=1424 per=175/599 [EST] [P]
E-value 3e-15 prot=662..1222 DNA=113010133..113011662 fr=1424 per=169/590 [EST] [P]
E-value 2e-14 prot=371..904 DNA=113010130..113011662 fr=1424 per=169/576 [EST] [P]
E-value 1e-11 prot=47..554 DNA=113010127..113011644 fr=1424 per=157/555 [EST] [P]
E-value 1e-22 prot=792..934 DNA=113011671..113012015 fr=1424 per=47/145 [EST] [P]
CANDIDATE 4
DNA (Note)
R-score = 0.023186; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_059144 332 aa

Similarity found to protein:
[3948|NP_059144] | Homo sapiens | lactate dehydrogenase C | length=332 aa
GO annotation:
0.000093 L-lactate dehydrogenase activity (function)
0.000005 cytoplasm (component)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 5e-16 prot=131..303 DNA=112973909..112974358 fr=332 per=70/180 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.023244; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_034829 332 aa

Similarity found to protein:
[16828|NP_034829] | Mus musculus | lactate dehydrogenase 1, A chain | length=332 aa
GO annotation:
0.000093 L-lactate dehydrogenase activity (function)
0.000005 cytoplasm (component)
0.000050 glycolysis (process)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 5e-17 prot=102..303 DNA=112973867..112974358 fr=332 per=74/205 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.023301; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_005557 332 aa

Similarity found to protein:
[3939|NP_005557] | Homo sapiens | lactate dehydrogenase A | length=332 aa
GO annotation:
0.000093 L-lactate dehydrogenase activity (function)
0.000005 protein binding (function)
0.000006 cytosol (component)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 9e-18 prot=102..303 DNA=112973867..112974358 fr=332 per=76/205 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.023359; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_002291 334 aa

Similarity found to protein:
[3945|NP_002291] | Homo sapiens | lactate dehydrogenase B | length=334 aa
GO annotation:
0.000093 L-lactate dehydrogenase activity (function)
0.000005 cytoplasm (component)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 8e-25 prot=103..306 DNA=112973867..112974364 fr=334 per=92/212 [EST]
E-value 1e-13 prot=186..328 DNA=112974004..112974429 fr=334 per=69/146 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.023416; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_058721 332 aa

Similarity found to protein:
[24533|NP_058721] | Rattus norvegicus | lactate dehydrogenase A | length=332 aa
GO annotation:
0.000000 lactate dehydrogenase activity (function)
0.000093 L-lactate dehydrogenase activity (function)
0.000006 cytosol (component)
0.000050 glycolysis (process)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 2e-17 prot=102..303 DNA=112973867..112974358 fr=332 per=74/205 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.023474; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_038608 332 aa

Similarity found to protein:
[16833|NP_038608] | Mus musculus | lactate dehydrogenase 3, C chain, sperm specific | length=332 aa
GO annotation:
0.000004 catalytic activity (function)
0.000093 L-lactate dehydrogenase activity (function)
0.000005 cytoplasm (component)
0.000050 glycolysis (process)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 3e-14 prot=124..300 DNA=112973888..112974349 fr=332 per=67/184 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.023647; GO-score = 0.000093
99248792 bp Chromosome 13 113248792 bp
   
   
1 aa NP_032518 334 aa

Similarity found to protein:
[16832|NP_032518] | Mus musculus | lactate dehydrogenase 2, B chain | length=334 aa
GO annotation:
0.000093 L-lactate dehydrogenase activity (function)
0.000005 cytoplasm (component)
0.000050 glycolysis (process)
0.000000 tricarboxylic acid cycle intermediate metabolism (process)
0.000000 oxidoreductase activity (function)
0.000000 anaerobic glycolysis (process)
BLASTX hits:
E-value 4e-24 prot=103..306 DNA=112973867..112974364 fr=334 per=93/204 [EST]
E-value 5e-13 prot=186..328 DNA=112974004..112974429 fr=334 per=67/146 [EST]