Analysis of Asthma chr1
Analysis of Asthma chr1 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr1
Method: Md
Chromosome: 1
Genomic position start-stop: 60597524-82169207
length: 21571684
Band: p32.1-p31.1
 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 chr1. 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)
R-score = 0.001438; GO-score = 0.000291
60597524 bp Chromosome 1 82169207 bp
   
  
1 aa NP_036226 214 aa

Similarity found to protein:
[25824|NP_036226] | Homo sapiens | peroxiredoxin 5 precursor isoform c | length=214 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000003 electron transporter activity (function)
0.000018 mitochondrion (component)
0.000013 peroxisome (component)
0.000038 inflammatory response (process)
0.000045 response to oxidative stress (process)
0.000037 respiratory gaseous exchange (process)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 1e-21 prot=3..214 DNA=76531946..76531287 fr=214 per=89/233 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_002591]
R-score = 0.011104; GO-score = 0.000164
60597524 bp Chromosome 1 82169207 bp
   
   
1 aa NP_525061 662 aa

Similarity found to protein:
[31309|NP_525061] | Drosophila melanogaster | dunce CG32498-PO | length=662 aa
GO annotation:
0.000000 reproduction (process)
0.000015 3',5'-cyclic-nucleotide phosphodiesterase activity (function)
0.000049 cAMP-specific phosphodiesterase activity (function)
0.000164 behavior (process)
0.000005 learning and/or memory (process)
0.000011 learning (process)
0.000003 memory (process)
0.000001 mating behavior (process)
0.000000 courtship behavior (process)
0.000004 circadian rhythm (process)
0.000000 associative learning (process)
0.000000 olfactory learning (process)
0.000000 cyclic nucleotide metabolism (process)
0.000000 oogenesis (sensu Insecta) (process)
0.000005 cAMP-mediated signaling (process)
0.000000 locomotor rhythm (process)
0.000000 nonassociative learning (process)
0.000000 behavioral response to ethanol (process)
BLASTX hits:
E-value 2e-19 prot=472..534 DNA=66546489..66546677 fr=662 per=46/63 [EST]
E-value 7e-18 prot=533..599 DNA=66550015..66550227 fr=662 per=47/72 [EST]
E-value 3e-33 prot=381..432 DNA=66545403..66545558 fr=662 per=44/52 [EST]
E-value 3e-33 prot=432..475 DNA=66545648..66545779 fr=662 per=40/44 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_005003]
R-score = 0.012657; GO-score = 0.000162
60597524 bp Chromosome 1 82169207 bp
   
   
1 aa NP_038718 1125 aa

Similarity found to protein:
[21687|NP_038718] | Mus musculus | endothelial-specific receptor tyrosine kinase | length=1125 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 protein kinase activity (function)
0.000004 protein serine/threonine kinase activity (function)
0.000004 protein-tyrosine kinase activity (function)
0.000008 receptor activity (function)
0.000003 structural molecule activity (function)
0.000004 ATP binding (function)
0.000010 extracellular space (component)
0.000004 protein amino acid phosphorylation (process)
0.000011 cell-matrix adhesion (process)
0.000005 integral to membrane (component)
0.000002 kinase activity (function)
0.000000 cell-cell adhesion (process)
0.000003 transferase activity (function)
0.000162 regulation of cell migration (process)
0.000000 regulation of angiogenesis (process)
BLASTX hits:
E-value 2e-41 prot=825..1093 DNA=64355163..64355984 fr=1125 per=101/275 [EST]
CANDIDATE 4
DNA (Note) PROTEIN: [NP_000948] [NP_000950] [NP_942005] [NP_942006] [NP_942007] [NP_942008] [NP_942009] [NP_942010] [NP_942011] [NP_942012] [NP_942013]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.017893; GO-score = 0.000104
60597524 bp Chromosome 1 82169207 bp
     
   
1 aa NP_035326 361 aa

Similarity found to protein:
[19218|NP_035326] | Mus musculus | prostaglandin E receptor 3, subtype EP3 | length=361 aa
GO annotation:

0.000000 rhodopsin-like receptor activity (function)
0.000043 fever (process)
0.000012 signal transducer activity (function)
0.000008 receptor activity (function)
0.000013 G-protein coupled receptor activity (function)
0.000000 prostaglandin receptor activity (function)
0.000012 prostaglandin E receptor activity (function)
0.000005 protein binding (function)
0.000020 plasma membrane (component)
0.000017 signal transduction (process)
0.000032 G-protein coupled receptor protein signaling pathway (process)
0.000027 G-protein signaling, coupled to cAMP nucleotide second messenger (process)
0.000104 G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) (process)
0.000061 elevation of cytosolic calcium ion concentration (process)
0.000030 bicarbonate transport (process)
0.000005 integral to membrane (component)
0.000000 diuresis (process)
BLASTX hits:
E-value 3e-93 prot=4..276 DNA=71225213..71224383 fr=361 per=233/277 [EST] [P]
E-value 2e-21 prot=276..338 DNA=71190189..71190001 fr=361 per=54/63 [EST] [P]
E-value 8e-30 prot=15..276 DNA=78670502..78671251 fr=361 per=92/263 [EST] [P]
CANDIDATE 5
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.022553; GO-score = 0.000094
60597524 bp Chromosome 1 82169207 bp
     
   
1 aa NP_524520 471 aa

Similarity found to protein:
[43231|NP_524520] | Drosophila melanogaster | Ribonuclear protein at 97D CG6354-PB | length=471 aa
GO annotation:

0.000005 mRNA binding (function)
0.000002 mRNA processing (process)
0.000000 RNA localization (process)
0.000006 spermatogenesis (process)
0.000094 spermatid development (process)
BLASTX hits:
E-value 1e-31 prot=55..201 DNA=80629606..80629166 fr=471 per=65/147 [EST] [P]
E-value 1e-31 prot=27..55 DNA=80629689..80629597 fr=471 per=15/31 [EST] [P]
E-value 3e-12 prot=49..187 DNA=81604315..81604728 fr=471 per=44/139 [EST] [P]
E-value 3e-12 prot=21..55 DNA=81604232..81604336 fr=471 per=15/35 [EST] [P]
CANDIDATE 6
DNA (Note) PROTEIN: [NP_036315]
R-score = 0.043151; GO-score = 0.000065
60597524 bp Chromosome 1 82169207 bp
   
   
1 aa NP_524302 719 aa

Similarity found to protein:
[41265|NP_524302] | Drosophila melanogaster | jumeau CG4029-PA | length=719 aa
GO annotation:
0.000003 regulation of progression through cell cycle (process)
0.000065 chromatin binding (function)
0.000004 transcription factor activity (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000000 polytene chromosome (component)
0.000000 polytene chromosome chromocenter (component)
0.000003 nucleolus (component)
0.000008 establishment and/or maintenance of chromatin architecture (process)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000003 transcription from RNA polymerase II promoter (process)
0.000000 dorsal closure (process)
0.000000 neuroblast fate determination (process)
0.000015 eye development (sensu Endopterygota) (process)
0.000000 wing morphogenesis (process)
0.000007 asymmetric protein localization (process)
0.000000 ATP synthesis coupled proton transport (process)
0.000000 proton-transporting two-sector ATPase complex (component)
0.000000 hydrogen-transporting ATP synthase activity, rotational mechanism (function)
0.000000 hydrogen-transporting ATPase activity, rotational mechanism (function)
BLASTX hits:
E-value 9e-11 prot=411..498 DNA=63501172..63501429 fr=719 per=38/88 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.043611; GO-score = 0.000065
60597524 bp Chromosome 1 82169207 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 2e-20 prot=170..245 DNA=80461080..80461307 fr=385 per=40/76 [EST]
E-value 2e-20 prot=250..335 DNA=80461303..80461554 fr=385 per=21/89 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.045337; GO-score = 0.000065
60597524 bp Chromosome 1 82169207 bp
   
  
1 aa NP_004292 429 aa

Similarity found to protein:
[86|NP_004292] | Homo sapiens | BAF53a isoform 2 | length=429 aa
GO annotation:
0.000002 regulation of cell growth (process)
0.000065 chromatin binding (function)
0.000009 motor activity (function)
0.000007 structural constituent of cytoskeleton (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000004 actin filament (component)
0.000002 chromatin remodeling (process)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000017 signal transduction (process)
0.000009 response to pest, pathogen or parasite (process)
0.000000 TIP60 histone acetyltransferase complex (component)
BLASTX hits:
E-value 5e-29 prot=119..428 DNA=77952396..77951578 fr=429 per=98/317 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.047005; GO-score = 0.000065
60597524 bp Chromosome 1 82169207 bp
   
   
1 aa NP_524392 2716 aa

Similarity found to protein:
[42130|NP_524392] | Drosophila melanogaster | osa CG7467-PB | length=2716 aa
GO annotation:
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000009 transcription coactivator activity (function)
0.000003 nucleus (component)
0.000005 regulation of transcription from RNA polymerase II promoter (process)
0.000000 segment specification (process)
0.000000 wing margin morphogenesis (process)
0.000001 Wnt receptor signaling pathway (process)
0.000000 transcription regulator activity (function)
0.000000 brahma complex (component)
0.000000 regulation of transcription (process)
0.000000 positive regulation of transcription, DNA-dependent (process)
0.000000 photoreceptor cell differentiation (process)
BLASTX hits:
E-value 1e-13 prot=988..1075 DNA=81680095..81680361 fr=2716 per=43/89 [EST]
CANDIDATE 10
DNA (Note)
R-score = 0.047868; GO-score = 0.000065
60597524 bp Chromosome 1 82169207 bp
   
  
1 aa NP_062647 429 aa

Similarity found to protein:
[56456|NP_062647] | Mus musculus | BRG1/brm-associated factor 53A | length=429 aa
GO annotation:
0.000002 regulation of cell growth (process)
0.000065 chromatin binding (function)
0.000009 motor activity (function)
0.000007 structural constituent of cytoskeleton (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000004 actin filament (component)
0.000002 chromatin remodeling (process)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000000 chromatin modification (process)
0.000001 chromatin remodeling complex (component)
BLASTX hits:
E-value 3e-28 prot=119..428 DNA=77952396..77951578 fr=429 per=97/317 [EST]