Analysis of Asthma chr2
Analysis of Asthma chr2 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr2
Method: Md
Chromosome: 2
Genomic position start-stop: 29225113-43225113
length: 14000001
Band: p23.2-p21
 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 chr2. 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_683765]
R-score = 0.018123; GO-score = 0.000104
29225113 bp Chromosome 2 43225113 bp
   
   
1 aa NP_002554 373 aa

Similarity found to protein:
[5028|NP_002554] | Homo sapiens | purinergic receptor P2Y1 | length=373 aa
GO annotation:
0.000000 rhodopsin-like receptor activity (function)
0.000008 receptor activity (function)
0.000015 integral to plasma membrane (component)
0.000104 G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) (process)
0.000006 blood coagulation (process)
0.000000 purinergic nucleotide receptor activity, G-protein coupled (function)
BLASTX hits:
E-value 4e-16 prot=32..156 DNA=42902755..42902381 fr=373 per=45/125 [EST]
CANDIDATE 2
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.022553; GO-score = 0.000094
29225113 bp Chromosome 2 43225113 bp
     
   
1 aa NP_524520 471 aa

Similarity found to protein:
[43231|NP_524520] | Drosophila melanogaster | Ribonuclear protein at 97D CG6354-PB | length=471 aa
GO annotation:

0.000005 mRNA binding (function)
0.000002 mRNA processing (process)
0.000000 RNA localization (process)
0.000006 spermatogenesis (process)
0.000094 spermatid development (process)
BLASTX hits:
E-value 3e-24 prot=27..199 DNA=33773245..33773760 fr=471 per=70/173 [EST] [P]
E-value 2e-14 prot=27..116 DNA=41295411..41295680 fr=471 per=46/90 [EST] [P]
E-value 8e-12 prot=105..158 DNA=41295643..41295804 fr=471 per=21/54 [EST] [P]
E-value 8e-12 prot=162..199 DNA=41295815..41295928 fr=471 per=17/38 [EST] [P]
CANDIDATE 3
DNA (Note)
R-score = 0.022726; GO-score = 0.000094
29225113 bp Chromosome 2 43225113 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-12 prot=450..666 DNA=32339362..32340006 fr=798 per=64/224 [EST]
CANDIDATE 4
DNA (Note) PROTEIN: [NP_057336]
R-score = 0.022899; GO-score = 0.000094
29225113 bp Chromosome 2 43225113 bp
   
         
1 aa NP_649995 4904 aa

Similarity found to protein:
[41260|NP_649995] | Drosophila melanogaster | CG6303 gene product CG6303-PA | length=4904 aa
GO annotation:
0.000001 ubiquitin conjugating enzyme activity (function)
0.000007 intracellular (component)
0.000007 protein modification (process)
0.000023 proteolysis (process)
0.000002 ubiquitin cycle (process)
0.000017 anti-apoptosis (process)
0.000094 spermatid development (process)
0.000000 sperm individualization (process)
0.000000 small protein conjugating enzyme activity (function)
0.000000 programmed cell death (process)
0.000000 ligase activity (function)
0.000000 negative regulation of apoptosis (process)
BLASTX hits:
E-value 2e-21 prot=4596..4652 DNA=32736452..32736622 fr=4904 per=48/57 [EST]
E-value 5e-16 prot=4690..4741 DNA=32744210..32744365 fr=4904 per=41/52 [EST]
E-value 3e-15 prot=1848..1918 DNA=32604244..32604456 fr=4904 per=41/71 [EST]
E-value 5e-13 prot=4056..4146 DNA=32679978..32680262 fr=4904 per=45/95 [EST]
E-value 2e-11 prot=3204..3291 DNA=32644698..32644955 fr=4904 per=38/88 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.023186; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 1e-86 prot=22..176 DNA=41958601..41959065 fr=332 per=110/155 [EST]
E-value 1e-86 prot=175..263 DNA=41959059..41959325 fr=332 per=67/89 [EST]
E-value 9e-24 prot=240..330 DNA=41959268..41959540 fr=332 per=54/91 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.023244; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 1e-96 prot=14..176 DNA=41958577..41959065 fr=332 per=133/163 [EST]
E-value 1e-96 prot=175..258 DNA=41959059..41959310 fr=332 per=68/84 [EST]
E-value 3e-31 prot=240..331 DNA=41959268..41959543 fr=332 per=73/92 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.023301; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 1e-101 prot=14..176 DNA=41958577..41959065 fr=332 per=137/163 [EST]
E-value 1e-101 prot=175..258 DNA=41959059..41959310 fr=332 per=70/84 [EST]
E-value 1e-31 prot=240..331 DNA=41959268..41959543 fr=332 per=74/92 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.023359; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 2e-85 prot=18..177 DNA=41958586..41959065 fr=334 per=115/160 [EST]
E-value 2e-85 prot=178..261 DNA=41959065..41959316 fr=334 per=59/84 [EST]
E-value 3e-18 prot=241..332 DNA=41959268..41959543 fr=334 per=47/92 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.023416; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 3e-98 prot=14..176 DNA=41958577..41959065 fr=332 per=133/163 [EST]
E-value 3e-98 prot=175..258 DNA=41959059..41959310 fr=332 per=69/84 [EST]
E-value 2e-31 prot=240..331 DNA=41959268..41959543 fr=332 per=73/92 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.023474; GO-score = 0.000093
29225113 bp Chromosome 2 43225113 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 2e-78 prot=22..176 DNA=41958601..41959065 fr=332 per=106/155 [EST]
E-value 2e-78 prot=175..258 DNA=41959059..41959310 fr=332 per=61/84 [EST]
E-value 2e-25 prot=240..331 DNA=41959268..41959543 fr=332 per=57/92 [EST]