Analysis of Asthma chr5
Analysis of Asthma chr5 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr5
Method: Md
Chromosome: 5
Genomic position start-stop: 100493712-114493712
length: 14000001
Band: q21.1-q22.3
 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 chr5. 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_000029]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.002186; GO-score = 0.000291
100493712 bp Chromosome 5 114493712 bp
   
     
1 aa NP_036631 2842 aa

Similarity found to protein:
[24205|NP_036631] | Rattus norvegicus | adenomatosis polyposis coli | length=2842 aa
GO annotation:

0.000003 regulation of progression through cell cycle (process)
0.000291 peroxidase activity (function)
0.000005 protein binding (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000005 cytoplasm (component)
0.000001 kinesin complex (component)
0.000007 protein complex assembly (process)
0.000013 cell adhesion (process)
0.000010 establishment and/or maintenance of cell polarity (process)
0.000017 signal transduction (process)
0.000002 beta-catenin binding (function)
0.000007 microtubule binding (function)
0.000000 axis specification (process)
0.000000 anterior/posterior pattern formation (process)
0.000000 dorsal/ventral pattern formation (process)
0.000001 Wnt receptor signaling pathway (process)
0.000000 negative regulation of progression through cell cycle (process)
BLASTX hits:
E-value 0.0 prot=651..2842 DNA=112195547..112202119 fr=2842 per=1930/2195 [EST] [P]
E-value 5e-66 prot=307..435 DNA=112176953..112177339 fr=2842 per=126/129 [EST] [P]
E-value 9e-32 prot=580..653 DNA=112192947..112193168 fr=2842 per=73/74 [EST] [P]
E-value 9e-18 prot=463..520 DNA=112185088..112185261 fr=2842 per=47/58 [EST] [P]
E-value 1e-14 prot=1..45 DNA=112112887..112113021 fr=2842 per=44/45 [EST] [P]
E-value 5e-12 prot=540..579 DNA=112186849..112186968 fr=2842 per=40/40 [EST] [P]
E-value 3e-11 prot=176..213 DNA=112138786..112138899 fr=2842 per=37/38 [EST] [P]
CANDIDATE 2
DNA (Note)
R-score = 0.011794; GO-score = 0.000164
100493712 bp Chromosome 5 114493712 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-12 prot=275..411 DNA=105902000..105901617 fr=447 per=48/137 [EST]
E-value 3e-12 prot=240..384 DNA=105901994..105901602 fr=447 per=48/145 [EST]
CANDIDATE 3
DNA (Note)
R-score = 0.011910; GO-score = 0.000164
100493712 bp Chromosome 5 114493712 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-12 prot=275..411 DNA=105902000..105901617 fr=447 per=48/137 [EST]
E-value 3e-12 prot=240..384 DNA=105901994..105901602 fr=447 per=48/145 [EST]
CANDIDATE 4
DNA (Note)
R-score = 0.047638; GO-score = 0.000065
100493712 bp Chromosome 5 114493712 bp
   
   
1 aa NP_523867 502 aa

Similarity found to protein:
[38012|NP_523867] | Drosophila melanogaster | Kruppel CG3340-PA | length=502 aa
GO annotation:
0.000010 negative regulation of transcription from RNA polymerase II promoter (process)
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000005 specific RNA polymerase II transcription factor activity (function)
0.000003 nucleus (component)
0.000000 zygotic determination of anterior/posterior axis, embryo (process)
0.000000 neuroblast fate determination (process)
0.000000 ganglion mother cell fate determination (process)
0.000017 axon guidance (process)
0.000000 ventral cord development (process)
0.000001 Malpighian tubule morphogenesis (process)
0.000015 eye development (sensu Endopterygota) (process)
0.000022 muscle development (process)
0.000003 zinc ion binding (function)
0.000008 cell proliferation (process)
0.000002 transcriptional repressor activity (function)
0.000000 specific transcriptional repressor activity (function)
0.000000 trunk segmentation (process)
0.000000 regulation of development, heterochronic (process)
BLASTX hits:
E-value 4e-19 prot=220..353 DNA=105902174..105901776 fr=502 per=51/134 [EST]
E-value 2e-17 prot=219..353 DNA=105902093..105901692 fr=502 per=45/135 [EST]
E-value 8e-17 prot=219..353 DNA=105902012..105901611 fr=502 per=46/135 [EST]
E-value 2e-12 prot=219..352 DNA=105901844..105901446 fr=502 per=45/134 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.073989; GO-score = 0.000050
100493712 bp Chromosome 5 114493712 bp
   
   
1 aa NP_004725 729 aa

Similarity found to protein:
[9201|NP_004725] | Homo sapiens | doublecortin and CaM kinase-like 1 | length=729 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 protein serine/threonine kinase activity (function)
0.000004 protein-tyrosine kinase activity (function)
0.000050 receptor signaling protein activity (function)
0.000005 protein binding (function)
0.000004 ATP binding (function)
0.000015 integral to plasma membrane (component)
0.000004 protein amino acid phosphorylation (process)
0.000008 intracellular signaling cascade (process)
0.000005 central nervous system development (process)
0.000001 endosome transport (process)
0.000002 kinase activity (function)
0.000003 transferase activity (function)
0.000014 cell differentiation (process)
BLASTX hits:
E-value 3e-23 prot=350..675 DNA=112792964..112791948 fr=729 per=101/351 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.075830; GO-score = 0.000049
100493712 bp Chromosome 5 114493712 bp
   
  
1 aa NP_034408 423 aa

Similarity found to protein:
[14581|NP_034408] | Mus musculus | growth factor independent 1 | length=423 aa
GO annotation:
0.000000 nucleic acid binding (function)
0.000003 DNA binding (function)
0.000003 nucleus (component)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000049 mechanosensory behavior (process)
0.000003 zinc ion binding (function)
0.000000 inner ear morphogenesis (process)
0.000000 auditory receptor cell differentiation (process)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 5e-24 prot=256..416 DNA=105902084..105901611 fr=423 per=63/161 [EST]
E-value 5e-22 prot=256..416 DNA=105902168..105901692 fr=423 per=62/161 [EST]
E-value 8e-22 prot=242..423 DNA=105902045..105901506 fr=423 per=70/182 [EST]
E-value 5e-20 prot=285..423 DNA=105902168..105901755 fr=423 per=53/139 [EST]
E-value 2e-18 prot=239..415 DNA=105901991..105901446 fr=423 per=64/184 [EST]
E-value 6e-17 prot=248..392 DNA=105901859..105901431 fr=423 per=59/145 [EST]
E-value 6e-15 prot=311..423 DNA=105902174..105901839 fr=423 per=43/113 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.075887; GO-score = 0.000049
100493712 bp Chromosome 5 114493712 bp
   
  
1 aa NP_036698 423 aa

Similarity found to protein:
[24388|NP_036698] | Rattus norvegicus | growth factor independent 1 | length=423 aa
GO annotation:
0.000003 G1/S-specific transcription in mitotic cell cycle (process)
0.000000 nucleic acid binding (function)
0.000003 DNA binding (function)
0.000004 transcription factor activity (function)
0.000004 RNA polymerase II transcription factor activity (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000005 regulation of transcription, DNA-dependent (process)
0.000049 mechanosensory behavior (process)
0.000003 zinc ion binding (function)
0.000003 viral life cycle (process)
0.000000 inner ear morphogenesis (process)
0.000000 auditory receptor cell differentiation (process)
BLASTX hits:
E-value 5e-24 prot=256..416 DNA=105902084..105901611 fr=423 per=63/161 [EST]
E-value 5e-22 prot=256..416 DNA=105902168..105901692 fr=423 per=62/161 [EST]
E-value 8e-22 prot=242..423 DNA=105902045..105901506 fr=423 per=70/182 [EST]
E-value 5e-20 prot=285..423 DNA=105902168..105901755 fr=423 per=53/139 [EST]
E-value 2e-18 prot=239..415 DNA=105901991..105901446 fr=423 per=64/184 [EST]
E-value 6e-17 prot=248..392 DNA=105901859..105901431 fr=423 per=59/145 [EST]
E-value 6e-15 prot=311..423 DNA=105902174..105901839 fr=423 per=43/113 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.082274; GO-score = 0.000046
100493712 bp Chromosome 5 114493712 bp
   
   
1 aa NP_035545 269 aa

Similarity found to protein:
[20583|NP_035545] | Mus musculus | snail homolog 2 | length=269 aa
GO annotation:
0.000000 nucleic acid binding (function)
0.000003 DNA binding (function)
0.000003 nucleus (component)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000006 development (process)
0.000003 zinc ion binding (function)
0.000046 response to radiation (process)
0.000000 regulation of survival gene product activity (process)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 2e-12 prot=129..261 DNA=105902084..105901692 fr=269 per=48/135 [EST]
E-value 5e-11 prot=129..261 DNA=105902168..105901776 fr=269 per=40/134 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.082331; GO-score = 0.000046
100493712 bp Chromosome 5 114493712 bp
   
   
1 aa NP_477011 512 aa

Similarity found to protein:
[34993|NP_477011] | Drosophila melanogaster | grp-P1 CG17161-PE | length=512 aa
GO annotation:
0.000003 cell cycle checkpoint (process)
0.000000 DNA damage checkpoint (process)
0.000000 embryonic development (sensu Insecta) (process)
0.000004 protein kinase activity (function)
0.000004 protein serine/threonine kinase activity (function)
0.000004 receptor signaling protein serine/threonine kinase activity (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000004 protein amino acid phosphorylation (process)
0.000006 cell cycle (process)
0.000002 mitotic checkpoint (process)
0.000008 intracellular signaling cascade (process)
0.000000 regulation of progression through syncytial blastoderm mitotic cell cycle (process)
0.000000 imaginal disc development (process)
0.000046 response to radiation (process)
0.000000 cellularization (sensu Metazoa) (process)
0.000000 female meiosis chromosome segregation (process)
0.000017 regulation of proteolysis (process)
BLASTX hits:
E-value 4e-19 prot=21..278 DNA=112792805..112792023 fr=512 per=90/268 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.083022; GO-score = 0.000045
100493712 bp Chromosome 5 114493712 bp
   
   
1 aa NP_006112 644 aa

Similarity found to protein:
[3848|NP_006112] | Homo sapiens | keratin 1 | length=644 aa
GO annotation:
0.000000 complement activation, lectin pathway (process)
0.000008 receptor activity (function)
0.000003 structural molecule activity (function)
0.000007 structural constituent of cytoskeleton (function)
0.000005 protein binding (function)
0.000006 sugar binding (function)
0.000007 cytoskeleton (component)
0.000017 intermediate filament (component)
0.000045 response to oxidative stress (process)
0.000009 epidermis development (process)
0.000006 membrane (component)
0.000000 fibrinolysis (process)
0.000000 regulation of angiogenesis (process)
BLASTX hits:
E-value 1e-26 prot=182..515 DNA=108946760..108947740 fr=644 per=89/335 [EST]