Analysis of Asthma chr16
Analysis of Asthma chr16 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr16
Method: Md
Chromosome: 16
Genomic position start-stop: 45200965-72516122
length: 27315158
Band: q12.2-q23.3
 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 chr16. 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_006733]
R-score = 0.003395; GO-score = 0.000291
45200965 bp Chromosome 16 72516122 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 9e-27 prot=24945..25164 DNA=66500443..66501111 fr=27118 per=73/224 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_005063]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.007882; GO-score = 0.000207
45200965 bp Chromosome 16 72516122 bp
   
           
1 aa NP_005126 1099 aa

Similarity found to protein:
[9990|NP_005126] | Homo sapiens | potassium chloride cotransporter KCC3 | length=1099 aa
GO annotation:

0.000003 regulation of progression through cell cycle (process)
0.000007 transporter activity (function)
0.000000 amino acid-polyamine transporter activity (function)
0.000006 membrane fraction (component)
0.000015 integral to plasma membrane (component)
0.000004 ion transport (process)
0.000023 potassium ion transport (process)
0.000030 sodium ion transport (process)
0.000000 chloride transport (process)
0.000004 amino acid transport (process)
0.000002 cell ion homeostasis (process)
0.000000 regulation of cell volume (process)
0.000207 blood pressure regulation (process)
0.000000 symporter activity (function)
0.000000 potassium:chloride symporter activity (function)
0.000006 membrane (component)
0.000000 potassium ion binding (function)
BLASTX hits:
E-value 1e-82 prot=757..830 DNA=66538053..66537832 fr=1099 per=55/74 [EST] [P]
E-value 6e-23 prot=236..322 DNA=66543848..66543588 fr=1099 per=59/87 [EST] [P]
E-value 1e-22 prot=499..558 DNA=66541900..66541721 fr=1099 per=54/60 [EST] [P]
E-value 1e-82 prot=828..884 DNA=66537743..66537573 fr=1099 per=47/57 [EST] [P]
E-value 3e-15 prot=198..242 DNA=66546179..66546045 fr=1099 per=43/45 [EST] [P]
E-value 8e-15 prot=319..392 DNA=66543450..66543232 fr=1099 per=40/74 [EST] [P]
E-value 1e-13 prot=1026..1069 DNA=66536624..66536493 fr=1099 per=39/44 [EST] [P]
E-value 1e-82 prot=883..927 DNA=66537490..66537356 fr=1099 per=38/45 [EST] [P]
E-value 3e-12 prot=593..630 DNA=66539578..66539465 fr=1099 per=32/38 [EST] [P]
E-value 5e-12 prot=631..670 DNA=66539192..66539073 fr=1099 per=35/40 [EST] [P]
E-value 1e-82 prot=928..963 DNA=66537276..66537169 fr=1099 per=32/36 [EST] [P]
E-value 6e-20 prot=384..447 DNA=66542761..66542543 fr=1099 per=39/74 [EST] [P]
E-value 6e-20 prot=447..479 DNA=66542466..66542368 fr=1099 per=29/33 [EST] [P]
CANDIDATE 3
DNA (Note)
R-score = 0.008975; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
    
1 aa NP_067248 381 aa

Similarity found to protein:
[12709|NP_067248] | Mus musculus | creatine kinase, brain | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000018 mitochondrion (component)
0.000002 kinase activity (function)
0.000003 transferase activity (function)
0.000000 transferase activity, transferring phosphorus-containing groups (function)
BLASTX hits:
E-value 9e-13 prot=209..295 DNA=45435483..45435226 fr=381 per=45/91 [EST]
E-value 5e-25 prot=165..317 DNA=45435607..45435161 fr=381 per=65/156 [EST]
E-value 5e-25 prot=1..130 DNA=45436034..45435663 fr=381 per=45/130 [EST]
CANDIDATE 4
DNA (Note)
R-score = 0.009090; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
     
1 aa NP_001815 381 aa

Similarity found to protein:
[1158|NP_001815] | Homo sapiens | muscle creatine kinase | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000005 cytoplasm (component)
BLASTX hits:
E-value 7e-23 prot=165..317 DNA=45435607..45435161 fr=381 per=53/157 [EST]
E-value 7e-23 prot=64..102 DNA=45435860..45435744 fr=381 per=23/39 [EST]
E-value 7e-23 prot=100..126 DNA=45435753..45435673 fr=381 per=17/27 [EST]
E-value 7e-23 prot=57..68 DNA=45435880..45435845 fr=381 per=9/12 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.009148; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
     
1 aa NP_036662 381 aa

Similarity found to protein:
[24265|NP_036662] | Rattus norvegicus | creatine kinase, muscle | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000005 cytoplasm (component)
0.000000 phosphocreatine metabolism (process)
0.000002 kinase activity (function)
0.000003 transferase activity (function)
0.000000 transferase activity, transferring phosphorus-containing groups (function)
0.000000 phosphocreatine biosynthesis (process)
BLASTX hits:
E-value 3e-11 prot=165..317 DNA=45435607..45435161 fr=381 per=52/157 [EST]
E-value 3e-11 prot=16..126 DNA=45435990..45435673 fr=381 per=36/115 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.009205; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
     
1 aa NP_031736 381 aa

Similarity found to protein:
[12715|NP_031736] | Mus musculus | creatine kinase, muscle | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000000 phosphocreatine metabolism (process)
0.000002 kinase activity (function)
0.000003 transferase activity (function)
0.000000 transferase activity, transferring phosphorus-containing groups (function)
0.000000 phosphocreatine biosynthesis (process)
BLASTX hits:
E-value 1e-11 prot=165..317 DNA=45435607..45435161 fr=381 per=52/157 [EST]
E-value 1e-11 prot=17..126 DNA=45435987..45435673 fr=381 per=37/114 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.009263; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
    
1 aa NP_036661 381 aa

Similarity found to protein:
[24264|NP_036661] | Rattus norvegicus | creatine kinase, brain | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000005 cytoplasm (component)
0.000018 mitochondrion (component)
0.000020 plasma membrane (component)
0.000000 phosphocreatine metabolism (process)
0.000003 brain development (process)
0.000002 kinase activity (function)
0.000003 transferase activity (function)
0.000000 transferase activity, transferring phosphorus-containing groups (function)
BLASTX hits:
E-value 9e-13 prot=209..295 DNA=45435483..45435226 fr=381 per=45/91 [EST]
E-value 4e-24 prot=165..317 DNA=45435607..45435161 fr=381 per=62/156 [EST]
E-value 4e-24 prot=1..130 DNA=45436034..45435663 fr=381 per=46/130 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.009378; GO-score = 0.000189
45200965 bp Chromosome 16 72516122 bp
 
    
1 aa NP_001814 381 aa

Similarity found to protein:
[1152|NP_001814] | Homo sapiens | brain creatine kinase | length=381 aa
GO annotation:
0.000189 creatine kinase activity (function)
0.000005 cytoplasm (component)
0.000002 kinase activity (function)
BLASTX hits:
E-value 3e-12 prot=209..295 DNA=45435483..45435226 fr=381 per=44/91 [EST]
E-value 2e-25 prot=165..317 DNA=45435607..45435161 fr=381 per=65/156 [EST]
E-value 2e-25 prot=1..130 DNA=45436034..45435663 fr=381 per=48/137 [EST]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_055884]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.011794; GO-score = 0.000164
45200965 bp Chromosome 16 72516122 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 3e-12 prot=238..381 DNA=48230150..48229719 fr=447 per=48/157 [EST] [P]
E-value 5e-11 prot=301..387 DNA=48230156..48229908 fr=447 per=34/87 [EST] [P]
E-value 5e-21 prot=242..384 DNA=67155696..67156085 fr=447 per=54/143 [EST] [P]
E-value 3e-20 prot=275..410 DNA=67154955..67155338 fr=447 per=54/136 [EST] [P]
E-value 4e-18 prot=275..384 DNA=67155684..67156001 fr=447 per=44/110 [EST] [P]
E-value 6e-18 prot=242..401 DNA=67155051..67155473 fr=447 per=55/160 [EST] [P]
E-value 2e-12 prot=242..360 DNA=67155780..67156097 fr=447 per=45/119 [EST] [P]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_001887] (Itself)
R-score = 0.022381; GO-score = 0.000094
45200965 bp Chromosome 16 72516122 bp
   
   
1 aa NP_001887 350 aa

Similarity found to protein:
[1459|NP_001887] | Homo sapiens | casein kinase 2, alpha prime polypeptide | length=350 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 protein serine/threonine kinase activity (function)
0.000001 protein kinase CK2 activity (function)
0.000004 protein-tyrosine kinase activity (function)
0.000005 protein binding (function)
0.000004 ATP binding (function)
0.000004 protein amino acid phosphorylation (process)
0.000017 signal transduction (process)
0.000094 spermatid development (process)
0.000001 Wnt receptor signaling pathway (process)
0.000003 transferase activity (function)
BLASTX hits:
E-value 2e-20 prot=276..325 DNA=56757116..56756967 fr=350 per=49/50 [EST]
E-value 5e-13 prot=208..250 DNA=56758717..56758589 fr=350 per=37/43 [EST]
E-value 5e-13 prot=172..235 DNA=56759201..56758980 fr=350 per=43/74 [EST]
E-value 1e-11 prot=242..281 DNA=56758093..56757974 fr=350 per=37/40 [EST]