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: 85670482-99670482
length: 14000001
Band: p22.3-p21.3
 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 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) PROTEIN: [NP_000341]
R-score = 0.036074; GO-score = 0.000078
85670482 bp Chromosome 1 99670482 bp
   
               
1 aa NP_038482 2201 aa

Similarity found to protein:
[11303|NP_038482] | Mus musculus | ATP-binding cassette 1, sub-family A, member 1 | length=2201 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000004 ATP binding (function)
0.000002 Golgi apparatus (component)
0.000015 integral to plasma membrane (component)
0.000007 transport (process)
0.000009 phagocytosis, engulfment (process)
0.000078 cholesterol metabolism (process)
0.000005 integral to membrane (component)
0.000004 ATPase activity (function)
0.000000 nucleoside-triphosphatase activity (function)
0.000000 cholesterol transport (process)
0.000000 lipoprotein biosynthesis (process)
0.000000 intracellular membrane-bound organelle (component)
0.000000 phospholipid translocation (process)
BLASTX hits:
E-value 6e-18 prot=1589..1647 DNA=94197336..94197160 fr=2201 per=43/59 [EST]
E-value 2e-15 prot=513..567 DNA=94240330..94240166 fr=2201 per=37/55 [EST]
E-value 3e-15 prot=1018..1111 DNA=94218990..94218712 fr=2201 per=50/95 [EST]
E-value 3e-15 prot=937..1023 DNA=94220606..94220331 fr=2201 per=51/92 [EST]
E-value 3e-15 prot=1463..1592 DNA=94199200..94198805 fr=2201 per=51/133 [EST]
E-value 8e-15 prot=2074..2155 DNA=94175690..94175439 fr=2201 per=48/86 [EST]
E-value 2e-13 prot=647..716 DNA=94234397..94234188 fr=2201 per=41/70 [EST]
E-value 1e-11 prot=1916..1963 DNA=94183162..94183019 fr=2201 per=36/48 [EST]
E-value 1e-11 prot=1682..1737 DNA=94192282..94192115 fr=2201 per=33/56 [EST]
E-value 9e-11 prot=724..790 DNA=94232881..94232681 fr=2201 per=35/67 [EST]
E-value 2e-20 prot=2042..2078 DNA=94178511..94178401 fr=2201 per=27/37 [EST]
E-value 2e-20 prot=2009..2045 DNA=94178683..94178573 fr=2201 per=27/37 [EST]
CANDIDATE 2
DNA (Note)
R-score = 0.043611; GO-score = 0.000065
85670482 bp Chromosome 1 99670482 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 3e-26 prot=170..342 DNA=92825200..92824712 fr=385 per=67/173 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_064447]
R-score = 0.045279; GO-score = 0.000065
85670482 bp Chromosome 1 99670482 bp
   
   
1 aa NP_038828 228 aa

Similarity found to protein:
[12023|NP_038828] | Mus musculus | BarH-like homeobox 2 | length=228 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)
0.000004 transcription factor activity (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000003 transcription factor complex (component)
0.000007 transcription (process)
0.000005 regulation of transcription, DNA-dependent (process)
0.000014 cell differentiation (process)
0.000000 catagen (process)
0.000000 myoblast differentiation (process)
0.000000 regulation of transcription (process)
BLASTX hits:
E-value 4e-13 prot=100..164 DNA=90892303..90892109 fr=228 per=39/65 [EST]
CANDIDATE 4
DNA (Note)
R-score = 0.045337; GO-score = 0.000065
85670482 bp Chromosome 1 99670482 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 1e-18 prot=287..428 DNA=92407002..92406598 fr=429 per=54/142 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.047868; GO-score = 0.000065
85670482 bp Chromosome 1 99670482 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 1e-18 prot=287..428 DNA=92407002..92406598 fr=429 per=54/142 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.062367; GO-score = 0.000050
85670482 bp Chromosome 1 99670482 bp
   
 
1 aa NP_004543 106 aa

Similarity found to protein:
[4725|NP_004543] | Homo sapiens | NADH dehydrogenase (ubiquinone) Fe-S protein 5, 15kDa (NADH-coenzyme Q reductase) | length=106 aa
GO annotation:
0.000000 NADH dehydrogenase activity (function)
0.000006 membrane fraction (component)
0.000018 mitochondrion (component)
0.000045 mitochondrial electron transport, NADH to ubiquinone (process)
0.000050 NADH dehydrogenase (ubiquinone) activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 5e-40 prot=1..105 DNA=96762312..96761998 fr=106 per=79/105 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.062482; GO-score = 0.000050
85670482 bp Chromosome 1 99670482 bp
   
    
1 aa NP_002480 81 aa

Similarity found to protein:
[4697|NP_002480] | Homo sapiens | NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4, 9kDa | length=81 aa
GO annotation:
0.000000 NADH dehydrogenase activity (function)
0.000018 mitochondrion (component)
0.000050 NADH dehydrogenase (ubiquinone) activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 9e-24 prot=36..81 DNA=89838935..89838795 fr=81 per=42/47 [EST]
E-value 9e-24 prot=1..34 DNA=89839038..89838937 fr=81 per=24/34 [EST]
CANDIDATE 8
DNA (Note)

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.069501; GO-score = 0.000050
85670482 bp Chromosome 1 99670482 bp
     
  
1 aa NP_032111 438 aa

Similarity found to protein:
[14447|NP_032111] | Mus musculus | glyceraldehyde-3-phosphate dehydrogenase, spermatogenic | length=438 aa
GO annotation:

0.000000 glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity (function)
0.000020 glucose metabolism (process)
0.000050 glycolysis (process)
0.000000 glyceraldehyde-3-phosphate dehydrogenase activity (function)
0.000000 flagellum (sensu Eukaryota) (component)
0.000000 oxidoreductase activity (function)
0.000000 sperm motility (process)
0.000000 NAD binding (function)
BLASTX hits:
E-value 6e-54 prot=156..371 DNA=92293221..92292580 fr=438 per=92/227 [EST] [P]
E-value 7e-11 prot=259..405 DNA=92292919..92292479 fr=438 per=63/155 [EST] [P]
E-value 6e-54 prot=110..156 DNA=92293363..92293220 fr=438 per=26/48 [EST] [P]
E-value 6e-54 prot=406..437 DNA=92292479..92292384 fr=438 per=19/32 [EST] [P]
E-value 9e-63 prot=110..259 DNA=94479637..94480065 fr=438 per=63/155 [EST] [P]
E-value 9e-63 prot=263..371 DNA=94480074..94480403 fr=438 per=60/110 [EST] [P]
E-value 9e-63 prot=378..437 DNA=94480421..94480600 fr=438 per=32/60 [EST] [P]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_005254]
R-score = 0.075830; GO-score = 0.000049
85670482 bp Chromosome 1 99670482 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-80 prot=95..264 DNA=92658686..92658177 fr=423 per=124/170 [EST]
E-value 3e-29 prot=359..423 DNA=92653820..92653611 fr=423 per=64/70 [EST]
E-value 3e-20 prot=309..372 DNA=92656335..92656138 fr=423 per=60/66 [EST]
E-value 5e-80 prot=264..309 DNA=92658064..92657927 fr=423 per=46/46 [EST]
E-value 9e-19 prot=44..100 DNA=92660614..92660444 fr=423 per=46/57 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_001545]
R-score = 0.088660; GO-score = 0.000045
85670482 bp Chromosome 1 99670482 bp
 
    
1 aa NP_034646 379 aa

Similarity found to protein:
[16007|NP_034646] | Mus musculus | cysteine rich protein 61 | length=379 aa
GO annotation:
0.000002 regulation of cell growth (process)
0.000000 patterning of blood vessels (process)
0.000005 protein binding (function)
0.000005 insulin-like growth factor binding (function)
0.000009 extracellular region (component)
0.000010 extracellular space (component)
0.000045 chemotaxis (process)
0.000013 cell adhesion (process)
0.000019 sensory perception (process)
0.000010 heparin binding (function)
0.000000 growth factor binding (function)
BLASTX hits:
E-value 3e-94 prot=79..207 DNA=85759590..85759988 fr=379 per=112/133 [EST]
E-value 5e-43 prot=290..379 DNA=85760475..85760744 fr=379 per=81/90 [EST]
E-value 3e-37 prot=22..94 DNA=85759070..85759288 fr=379 per=71/73 [EST]
E-value 3e-94 prot=200..279 DNA=85760081..85760329 fr=379 per=69/85 [EST]