Analysis of Asthma chr4
Analysis of Asthma chr4 G2D Home
GO TO:
REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr4
Method: Md
Chromosome: 4
Genomic position start-stop: 159216448-186178827
length: 26962380
Band: q32.1-q35.1
 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 chr4. 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_000900]
R-score = 0.000805; GO-score = 0.000356
159216448 bp Chromosome 4 186178827 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-11 prot=16..182 DNA=164605222..164604737 fr=359 per=49/171 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_006165]
R-score = 0.010529; GO-score = 0.000164
159216448 bp Chromosome 4 186178827 bp
   
   
1 aa NP_036717 422 aa

Similarity found to protein:
[24473|NP_036717] | Rattus norvegicus | 5-hydroxytryptamine (serotonin) receptor 1A | length=422 aa
GO annotation:
0.000000 rhodopsin-like receptor activity (function)
0.000008 receptor activity (function)
0.000013 G-protein coupled receptor activity (function)
0.000000 adrenoceptor activity (function)
0.000019 neuropeptide Y receptor activity (function)
0.000019 serotonin receptor activity (function)
0.000015 integral to plasma membrane (component)
0.000032 G-protein coupled receptor protein signaling pathway (process)
0.000006 serotonin receptor signaling pathway (process)
0.000164 behavior (process)
0.000007 positive regulation of cell proliferation (process)
0.000005 integral to membrane (component)
BLASTX hits:
E-value 5e-17 prot=10..417 DNA=164629080..164630357 fr=422 per=104/440 [EST]
CANDIDATE 3
DNA (Note)
R-score = 0.022208; GO-score = 0.000094
159216448 bp Chromosome 4 186178827 bp
   
  
1 aa NP_068814 639 aa

Similarity found to protein:
[3306|NP_068814] | Homo sapiens | heat shock 70kDa protein 2 | length=639 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 ATP binding (function)
0.000005 protein folding (process)
0.000000 response to unfolded protein (process)
0.000000 male meiosis (process)
0.000094 spermatid development (process)
0.000000 cell surface (component)
0.000000 unfolded protein binding (function)
BLASTX hits:
E-value 1e-160 prot=5..189 DNA=165467217..165467777 fr=639 per=115/187 [EST]
E-value 1e-160 prot=190..427 DNA=165467768..165468472 fr=639 per=124/238 [EST]
E-value 1e-160 prot=426..614 DNA=165468466..165469035 fr=639 per=99/190 [EST]
CANDIDATE 4
DNA (Note) PROTEIN: [NP_001012414] [NP_689833]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.033600; GO-score = 0.000081
159216448 bp Chromosome 4 186178827 bp
   
  
1 aa NP_439893 395 aa

Similarity found to protein:
[10107|NP_439893] | Homo sapiens | tripartite motif-containing 10 isoform 2 | length=395 aa
GO annotation:

0.000001 ubiquitin ligase complex (component)
0.000001 ubiquitin-protein ligase activity (function)
0.000003 zinc ion binding (function)
0.000000 protein ubiquitination (process)
0.000081 hemopoiesis (process)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 5e-43 prot=1..367 DNA=166337906..166338958 fr=395 per=117/373 [EST] [P]
E-value 2e-42 prot=1..390 DNA=166318831..166319979 fr=395 per=123/400 [EST] [P]
E-value 1e-33 prot=7..367 DNA=166248751..166247705 fr=395 per=110/367 [EST] [P]
E-value 8e-30 prot=28..385 DNA=166226910..166227944 fr=395 per=104/368 [EST] [P]
E-value 6e-33 prot=3..297 DNA=166194321..166195202 fr=395 per=88/301 [EST] [P]
E-value 3e-22 prot=16..154 DNA=166289262..166289672 fr=395 per=44/141 [EST] [P]
E-value 2e-12 prot=16..214 DNA=166305702..166305115 fr=395 per=50/201 [EST] [P]
E-value 6e-33 prot=312..367 DNA=166195214..166195381 fr=395 per=24/56 [EST] [P]
E-value 7e-13 prot=16..60 DNA=166218703..166218581 fr=395 per=20/45 [EST] [P]
E-value 7e-13 prot=72..229 DNA=166218546..166218067 fr=395 per=42/166 [EST] [P]
E-value 3e-22 prot=159..305 DNA=166289669..166290100 fr=395 per=33/147 [EST] [P]
CANDIDATE 5
DNA (Note)
R-score = 0.034520; GO-score = 0.000078
159216448 bp Chromosome 4 186178827 bp
   
  
1 aa NP_037287 873 aa

Similarity found to protein:
[25696|NP_037287] | Rattus norvegicus | very low density lipoprotein receptor | length=873 aa
GO annotation:
0.000000 neuron migration (process)
0.000008 receptor activity (function)
0.000013 low-density lipoprotein receptor activity (function)
0.000022 lipid transporter activity (function)
0.000015 calcium ion binding (function)
0.000005 protein binding (function)
0.000010 extracellular space (component)
0.000005 coated pit (component)
0.000018 lipid transport (process)
0.000002 endocytosis (process)
0.000017 signal transduction (process)
0.000007 nervous system development (process)
0.000003 memory (process)
0.000078 cholesterol metabolism (process)
0.000006 membrane (component)
0.000005 integral to membrane (component)
BLASTX hits:
E-value 7e-62 prot=656..820 DNA=185368759..185369181 fr=873 per=99/169 [EST]
E-value 7e-62 prot=817..873 DNA=185369169..185369339 fr=873 per=39/57 [EST]
E-value 7e-62 prot=643..657 DNA=185368725..185368769 fr=873 per=10/15 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.036994; GO-score = 0.000078
159216448 bp Chromosome 4 186178827 bp
   
  
1 aa NP_038731 873 aa

Similarity found to protein:
[22359|NP_038731] | Mus musculus | very low density lipoprotein receptor | length=873 aa
GO annotation:
0.000008 receptor activity (function)
0.000022 lipid transporter activity (function)
0.000015 calcium ion binding (function)
0.000010 extracellular space (component)
0.000006 membrane fraction (component)
0.000005 coated pit (component)
0.000013 lipid metabolism (process)
0.000007 transport (process)
0.000018 lipid transport (process)
0.000002 endocytosis (process)
0.000008 steroid metabolism (process)
0.000078 cholesterol metabolism (process)
0.000006 membrane (component)
0.000005 integral to membrane (component)
BLASTX hits:
E-value 2e-61 prot=656..820 DNA=185368759..185369181 fr=873 per=97/169 [EST]
E-value 2e-61 prot=817..873 DNA=185369169..185369339 fr=873 per=39/57 [EST]
E-value 2e-61 prot=643..657 DNA=185368725..185368769 fr=873 per=10/15 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.037340; GO-score = 0.000078
159216448 bp Chromosome 4 186178827 bp
   
  
1 aa NP_003374 873 aa

Similarity found to protein:
[7436|NP_003374] | Homo sapiens | very low density lipoprotein receptor | length=873 aa
GO annotation:
0.000008 receptor activity (function)
0.000013 low-density lipoprotein receptor activity (function)
0.000022 lipid transporter activity (function)
0.000015 calcium ion binding (function)
0.000005 coated pit (component)
0.000013 lipid metabolism (process)
0.000018 lipid transport (process)
0.000002 endocytosis (process)
0.000017 signal transduction (process)
0.000007 nervous system development (process)
0.000003 memory (process)
0.000008 steroid metabolism (process)
0.000078 cholesterol metabolism (process)
0.000006 membrane (component)
0.000005 integral to membrane (component)
BLASTX hits:
E-value 2e-61 prot=656..820 DNA=185368759..185369181 fr=873 per=97/169 [EST]
E-value 2e-61 prot=817..873 DNA=185369169..185369339 fr=873 per=39/57 [EST]
E-value 2e-61 prot=643..657 DNA=185368725..185368769 fr=873 per=10/15 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.042978; GO-score = 0.000065
159216448 bp Chromosome 4 186178827 bp
   
     
1 aa NP_057157 203 aa

Similarity found to protein:
[50810|NP_057157] | Homo sapiens | hepatoma-derived growth factor, related protein 3 | length=203 aa
GO annotation:
0.000065 chromatin binding (function)
0.000003 nucleus (component)
0.000007 growth factor activity (function)
0.000008 cell proliferation (process)
BLASTX hits:
E-value 3e-14 prot=24..154 DNA=176582961..176583365 fr=203 per=55/137 [EST]
E-value 3e-14 prot=6..20 DNA=176582911..176582955 fr=203 per=8/15 [EST]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_002120]
R-score = 0.043611; GO-score = 0.000065
159216448 bp Chromosome 4 186178827 bp
   
   
1 aa NP_542446 385 aa

Similarity found to protein:
[117294|NP_542446] | Drosophila melanogaster | Dorsal switch protein 1 CG12223-PC | length=385 aa
GO annotation:
0.000000 chromatin (component)
0.000065 chromatin binding (function)
0.000010 single-stranded DNA binding (function)
0.000012 transcription corepressor activity (function)
0.000003 nucleus (component)
0.000002 DNA unwinding during replication (process)
0.000000 chromatin assembly or disassembly (process)
0.000005 regulation of transcription from RNA polymerase II promoter (process)
BLASTX hits:
E-value 1e-13 prot=170..218 DNA=174629510..174629364 fr=385 per=34/49 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_001555] (Itself)
R-score = 0.044762; GO-score = 0.000065
159216448 bp Chromosome 4 186178827 bp
   
    
1 aa NP_001555 280 aa

Similarity found to protein:
[3622|NP_001555] | Homo sapiens | inhibitor of growth family, member 1-like | length=280 aa
GO annotation:
0.000002 regulation of cell growth (process)
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000000 chromosome (component)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000017 signal transduction (process)
0.000003 zinc ion binding (function)
0.000000 chromatin modification (process)
0.000000 CCAAT-binding factor complex (component)
0.000000 metal ion binding (function)
BLASTX hits:
E-value 4e-74 prot=89..266 DNA=184806677..184807210 fr=280 per=178/178 [EST]
E-value 6e-20 prot=1..57 DNA=184801499..184801669 fr=280 per=57/57 [EST]