Analysis of Asthma chr12
Analysis of Asthma chr12 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr12
Method: Md
Chromosome: 12
Genomic position start-stop: 28020024-90127216
length: 62107193
Band: p11.23-q21.33
 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 chr12. 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_009195]
R-score = 0.000805; GO-score = 0.000356
28020024 bp Chromosome 12 90127216 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 5e-27 prot=29..323 DNA=55675421..55676284 fr=359 per=82/296 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_862830]
R-score = 0.001093; GO-score = 0.000291
28020024 bp Chromosome 12 90127216 bp
   
  
1 aa NP_523891 1527 aa

Similarity found to protein:
[38326|NP_523891] | Drosophila melanogaster | Peroxidasin CG12002-PB | length=1527 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000021 extracellular matrix (sensu Metazoa) (component)
0.000008 oxygen and reactive oxygen species metabolism (process)
0.000018 defense response (process)
BLASTX hits:
E-value 2e-17 prot=7..329 DNA=45758987..45757902 fr=1527 per=108/380 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_003574] [NP_006473]
R-score = 0.003395; GO-score = 0.000291
28020024 bp Chromosome 12 90127216 bp
   
   
1 aa NP_597681 27118 aa

Similarity found to protein:
[7273|NP_597681] | Homo sapiens | titin isoform novex-3 | length=27118 aa
GO annotation:
0.000002 biological process unknown (process)
0.000000 condensed nuclear chromosome (component)
0.000291 peroxidase activity (function)
0.000004 protein serine/threonine kinase activity (function)
0.000004 protein-tyrosine kinase activity (function)
0.000008 receptor activity (function)
0.000000 hematopoietin/interferon-class (D200-domain) cytokine receptor activity (function)
0.000005 protein binding (function)
0.000006 calmodulin binding (function)
0.000004 ATP binding (function)
0.000007 cytoskeleton (component)
0.000005 carbohydrate metabolism (process)
0.000004 protein amino acid phosphorylation (process)
0.000019 muscle contraction (process)
0.000020 striated muscle contraction (process)
0.000001 regulation of striated muscle contraction (process)
0.000018 immune response (process)
0.000045 response to oxidative stress (process)
0.000003 mitosis (process)
0.000022 muscle development (process)
0.000013 structural constituent of muscle (function)
0.000006 membrane (component)
0.000000 myosin binding (function)
0.000000 myofibril (component)
0.000000 sarcomere (component)
0.000003 Z disc (component)
0.000000 myofibril assembly (process)
0.000000 identical protein binding (function)
0.000000 protein amino acid autophosphorylation (process)
0.000000 alpha-actinin binding (function)
BLASTX hits:
E-value 3e-12 prot=24945..25138 DNA=66337616..66338209 fr=27118 per=56/201 [EST]
CANDIDATE 4
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.004027; GO-score = 0.000291
28020024 bp Chromosome 12 90127216 bp
   
   
1 aa NP_570054 479 aa

Similarity found to protein:
[31308|NP_570054] | Drosophila melanogaster | CG10793-PA | length=479 aa
GO annotation:

0.000291 peroxidase activity (function)
0.000004 ATP binding (function)
0.000045 response to oxidative stress (process)
0.000004 ATPase activity (function)
BLASTX hits:
E-value 5e-19 prot=203..427 DNA=67154173..67154853 fr=479 per=74/235 [EST] [P]
CANDIDATE 5
DNA (Note) PROTEIN: [NP_002280] (Itself)
R-score = 0.008630; GO-score = 0.000206
28020024 bp Chromosome 12 90127216 bp
   
  
1 aa NP_002280 142 aa

Similarity found to protein:
[3906|NP_002280] | Homo sapiens | lactalbumin, alpha- | length=142 aa
GO annotation:
0.000001 lactose synthase activity (function)
0.000015 calcium ion binding (function)
0.000010 extracellular space (component)
0.000206 lactose biosynthesis (process)
0.000015 induction of apoptosis (process)
0.000017 signal transduction (process)
0.000019 cell-cell signaling (process)
0.000000 defense response to bacteria (process)
BLASTX hits:
E-value 1e-23 prot=40..97 DNA=47249307..47249134 fr=142 per=53/58 [EST]
E-value 1e-15 prot=1..44 DNA=47250071..47249940 fr=142 per=44/44 [EST]
CANDIDATE 6
DNA (Note) PROTEIN: [NP_001962]
R-score = 0.008803; GO-score = 0.000203
28020024 bp Chromosome 12 90127216 bp
   
   
1 aa NP_036685 271 aa

Similarity found to protein:
[24332|NP_036685] | Rattus norvegicus | elastase 2 | length=271 aa
GO annotation:
0.000044 serine-type endopeptidase activity (function)
0.000003 chymotrypsin activity (function)
0.000203 pancreatic elastase II activity (function)
0.000005 trypsin activity (function)
0.000023 proteolysis (process)
0.000002 hydrolase activity (function)
BLASTX hits:
E-value 7e-11 prot=212..267 DNA=50009897..50009733 fr=271 per=35/56 [EST]
CANDIDATE 7
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.009781; GO-score = 0.000171
28020024 bp Chromosome 12 90127216 bp
   
   
1 aa NP_035965 491 aa

Similarity found to protein:
[23924|NP_035965] | Mus musculus | katanin p60 (ATPase-containing) subunit A1 | length=491 aa
GO annotation:

0.000005 nucleotide binding (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000171 lipid particle (component)
0.000002 microtubule (component)
0.000020 plasma membrane (component)
0.000006 cell cycle (process)
0.000003 mitosis (process)
0.000004 protein localization (process)
0.000002 microtubule-severing ATPase activity (function)
0.000002 hydrolase activity (function)
0.000004 ATPase activity (function)
0.000000 nucleoside-triphosphatase activity (function)
0.000000 cell division (process)
BLASTX hits:
E-value 2e-26 prot=192..472 DNA=67154128..67154916 fr=491 per=96/288 [EST] [P]
CANDIDATE 8
DNA (Note) PROTEIN: [NP_000697]
R-score = 0.010471; GO-score = 0.000164
28020024 bp Chromosome 12 90127216 bp
   
   
1 aa NP_037203 398 aa

Similarity found to protein:
[25601|NP_037203] | Rattus norvegicus | opioid receptor, mu 1 | length=398 aa
GO annotation:
0.000000 rhodopsin-like receptor activity (function)
0.000008 receptor activity (function)
0.000013 G-protein coupled receptor activity (function)
0.000019 neuropeptide Y receptor activity (function)
0.000005 opioid receptor activity (function)
0.000024 mu-opioid receptor activity (function)
0.000006 membrane fraction (component)
0.000005 endoplasmic reticulum (component)
0.000002 Golgi apparatus (component)
0.000015 integral to plasma membrane (component)
0.000018 immune response (process)
0.000032 G-protein coupled receptor protein signaling pathway (process)
0.000015 G-protein signaling, coupled to cyclic nucleotide second messenger (process)
0.000012 dopamine receptor, adenylate cyclase activating pathway (process)
0.000007 G-protein signaling, adenylate cyclase inhibiting pathway (process)
0.000019 sensory perception (process)
0.000164 behavior (process)
0.000005 negative regulation of cell proliferation (process)
0.000005 integral to membrane (component)
0.000000 purinergic nucleotide receptor activity, G-protein coupled (function)
BLASTX hits:
E-value 2e-12 prot=85..298 DNA=61830683..61829958 fr=398 per=69/256 [EST]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_690599]
R-score = 0.011794; GO-score = 0.000164
28020024 bp Chromosome 12 90127216 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 9e-16 prot=304..427 DNA=52008608..52008228 fr=447 per=46/127 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_000880]
R-score = 0.012830; GO-score = 0.000162
28020024 bp Chromosome 12 90127216 bp
   
     
1 aa NP_058060 787 aa

Similarity found to protein:
[16416|NP_058060] | Mus musculus | integrin beta 3 | length=787 aa
GO annotation:
0.000008 receptor activity (function)
0.000005 protein binding (function)
0.000000 cell-substrate junction assembly (process)
0.000013 cell adhesion (process)
0.000011 cell-matrix adhesion (process)
0.000007 integrin-mediated signaling pathway (process)
0.000003 metabolism (process)
0.000009 integrin complex (component)
0.000000 external side of plasma membrane (component)
0.000005 integral to membrane (component)
0.000000 oxidoreductase activity (function)
0.000162 regulation of cell migration (process)
BLASTX hits:
E-value 4e-13 prot=177..268 DNA=51876873..51876604 fr=787 per=42/92 [EST]
E-value 7e-13 prot=548..633 DNA=51873005..51872754 fr=787 per=35/86 [EST]
E-value 5e-15 prot=127..211 DNA=51877701..51877441 fr=787 per=37/87 [EST]
E-value 5e-15 prot=74..121 DNA=51877934..51877797 fr=787 per=18/48 [EST]