Analysis of Asthma chr8
Analysis of Asthma chr8 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr8
Method: Md
Chromosome: 8
Genomic position start-stop: 51781759-65781759
length: 14000001
Band: q11.23-q13.1
 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 chr8. 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_000903] [NP_005276]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.000805; GO-score = 0.000356
51781759 bp Chromosome 8 65781759 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 1e-21 prot=35..317 DNA=54015151..54015987 fr=359 per=84/298 [EST] [P]
E-value 5e-17 prot=56..165 DNA=54310224..54309898 fr=359 per=46/110 [EST] [P]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_653252]
R-score = 0.001093; GO-score = 0.000291
51781759 bp Chromosome 8 65781759 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 1e-133 prot=738..1238 DNA=52484676..52483180 fr=1527 per=250/504 [EST]
E-value 9e-13 prot=1283..1350 DNA=52447197..52446994 fr=1527 per=35/68 [EST]
CANDIDATE 3
DNA (Note)
R-score = 0.004027; GO-score = 0.000291
51781759 bp Chromosome 8 65781759 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 1e-23 prot=203..427 DNA=57125934..57125254 fr=479 per=73/230 [EST]
CANDIDATE 4
DNA (Note)
R-score = 0.009781; GO-score = 0.000171
51781759 bp Chromosome 8 65781759 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-35 prot=192..472 DNA=57125979..57125191 fr=491 per=105/288 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.011794; GO-score = 0.000164
51781759 bp Chromosome 8 65781759 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 2e-15 prot=275..383 DNA=56697866..56698180 fr=447 per=43/109 [EST]
E-value 2e-13 prot=297..384 DNA=56697848..56698099 fr=447 per=40/88 [EST]
E-value 7e-15 prot=326..388 DNA=56698180..56698362 fr=447 per=24/63 [EST]
E-value 7e-15 prot=240..331 DNA=56697956..56698198 fr=447 per=35/92 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.011910; GO-score = 0.000164
51781759 bp Chromosome 8 65781759 bp
   
   
1 aa NP_003403 447 aa

Similarity found to protein:
[7545|NP_003403] | Homo sapiens | zinc finger protein of the cerebellum 1 | length=447 aa
GO annotation:
0.000004 transcription factor activity (function)
0.000003 nucleus (component)
0.000001 pattern specification (process)
0.000007 nervous system development (process)
0.000003 brain development (process)
0.000164 behavior (process)
0.000003 zinc ion binding (function)
0.000000 regulation of smoothened signaling pathway (process)
0.000014 cell differentiation (process)
0.000000 neuron lineage restriction (process)
0.000000 inner ear morphogenesis (process)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 2e-15 prot=275..383 DNA=56697866..56698180 fr=447 per=43/109 [EST]
E-value 2e-13 prot=297..384 DNA=56697848..56698099 fr=447 per=40/88 [EST]
E-value 7e-15 prot=326..388 DNA=56698180..56698362 fr=447 per=24/63 [EST]
E-value 7e-15 prot=240..331 DNA=56697956..56698198 fr=447 per=35/92 [EST]
CANDIDATE 7
DNA (Note) PROTEIN: [NP_001007068] [NP_001007069] [NP_001007070] [NP_001007071] [NP_005616] (Itself)
R-score = 0.012888; GO-score = 0.000162
51781759 bp Chromosome 8 65781759 bp
   
   
1 aa NP_005616 298 aa

Similarity found to protein:
[6386|NP_005616] | Homo sapiens | syndecan binding protein (syntenin) | length=298 aa
GO annotation:
0.000162 interleukin-5 receptor binding (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000005 endoplasmic reticulum (component)
0.000007 cytoskeleton (component)
0.000000 interleukin-5 receptor complex (component)
0.000001 adherens junction (component)
0.000001 protein targeting to membrane (process)
0.000002 substrate-bound cell migration, cell extension (process)
0.000008 intracellular signaling cascade (process)
0.000012 synaptic transmission (process)
0.000002 cytoskeletal adaptor activity (function)
0.000003 metabolism (process)
0.000006 membrane (component)
0.000000 oxidoreductase activity (function)
0.000002 actin cytoskeleton organization and biogenesis (process)
0.000000 neurexin binding (function)
0.000000 syndecan binding (function)
0.000000 protein heterodimerization activity (function)
BLASTX hits:
E-value 1e-24 prot=193..250 DNA=59654735..59654908 fr=298 per=58/58 [EST]
E-value 1e-24 prot=135..193 DNA=59653147..59653323 fr=298 per=59/59 [EST]
E-value 7e-21 prot=81..134 DNA=59651014..59651175 fr=298 per=54/54 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.013578; GO-score = 0.000162
51781759 bp Chromosome 8 65781759 bp
   
   
1 aa NP_031694 292 aa

Similarity found to protein:
[12568|NP_031694] | Mus musculus | cyclin-dependent kinase 5 | length=292 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 protein kinase activity (function)
0.000004 protein serine/threonine kinase activity (function)
0.000001 cyclin-dependent protein kinase activity (function)
0.000005 protein binding (function)
0.000004 ATP binding (function)
0.000006 cytosol (component)
0.000004 protein amino acid phosphorylation (process)
0.000006 cell cycle (process)
0.000011 cell-matrix adhesion (process)
0.000002 axonogenesis (process)
0.000002 kinase activity (function)
0.000024 cell migration (process)
0.000003 transferase activity (function)
0.000001 lamellipodium (component)
0.000000 filopodium (component)
0.000162 regulation of cell migration (process)
0.000000 cell division (process)
BLASTX hits:
E-value 2e-13 prot=48..194 DNA=54612356..54612844 fr=292 per=59/165 [EST]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_060250]
R-score = 0.015994; GO-score = 0.000121
51781759 bp Chromosome 8 65781759 bp
   
   
1 aa NP_476661 784 aa

Similarity found to protein:
[33507|NP_476661] | Drosophila melanogaster | okr-P1 CG3736-PA | length=784 aa
GO annotation:
0.000000 nucleic acid binding (function)
0.000003 DNA binding (function)
0.000012 ATP-dependent DNA helicase activity (function)
0.000004 ATP binding (function)
0.000004 DNA repair (process)
0.000007 double-strand break repair (process)
0.000005 DNA recombination (process)
0.000003 regulation of translation (process)
0.000007 meiotic recombination (process)
0.000000 intracellular mRNA localization (process)
0.000000 oogenesis (sensu Insecta) (process)
0.000121 chromosome condensation (process)
0.000000 dorsal appendage formation (process)
BLASTX hits:
E-value 3e-12 prot=540..638 DNA=61911929..61912225 fr=784 per=38/99 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.022323; GO-score = 0.000094
51781759 bp Chromosome 8 65781759 bp
   
   
1 aa NP_035259 478 aa

Similarity found to protein:
[18952|NP_035259] | Mus musculus | peanut-like 2 homolog | length=478 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000006 GTP binding (function)
0.000006 cell cycle (process)
0.000094 spermatid development (process)
0.000000 flagellum (sensu Eukaryota) (component)
0.000000 sperm mitochondrion organization and biogenesis (process)
0.000000 sperm capacitation (process)
0.000000 cell division (process)
BLASTX hits:
E-value 5e-54 prot=147..415 DNA=57553101..57552316 fr=478 per=111/271 [EST]
E-value 5e-54 prot=124..151 DNA=57553168..57553085 fr=478 per=11/28 [EST]