Analysis of Asthma chr19
Analysis of Asthma chr19 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr19
Method: Md
Chromosome: 19
Genomic position start-stop: 9926300-16107331
length: 6181032
Band: p13.2-p13.12
 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 chr19. 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_859428]
R-score = 0.002359; GO-score = 0.000291
9926300 bp Chromosome 19 16107331 bp
   
  
1 aa NP_058865 198 aa

Similarity found to protein:
[29338|NP_058865] | Rattus norvegicus | peroxiredoxin 2 | length=198 aa
GO annotation:
0.000291 peroxidase activity (function)
0.000003 electron transporter activity (function)
0.000005 cytoplasm (component)
0.000008 oxygen and reactive oxygen species metabolism (process)
0.000017 anti-apoptosis (process)
0.000045 response to oxidative stress (process)
0.000021 thioredoxin peroxidase activity (function)
0.000006 selenium binding (function)
0.000000 antioxidant activity (function)
0.000000 oxidoreductase activity (function)
BLASTX hits:
E-value 4e-33 prot=35..85 DNA=12772284..12772132 fr=198 per=49/51 [EST]
E-value 3e-15 prot=112..170 DNA=12771247..12771074 fr=198 per=46/59 [EST]
E-value 2e-11 prot=87..127 DNA=12771512..12771390 fr=198 per=36/41 [EST]
E-value 4e-33 prot=1..36 DNA=12772475..12772368 fr=198 per=30/36 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_060851] [NP_114123]
R-score = 0.007192; GO-score = 0.000207
9926300 bp Chromosome 19 16107331 bp
   
   
1 aa NP_068656 453 aa

Similarity found to protein:
[2266|NP_068656] | Homo sapiens | fibrinogen, gamma chain isoform gamma-B precursor | length=453 aa
GO annotation:
0.000015 calcium ion binding (function)
0.000004 fibrinogen complex (component)
0.000017 signal transduction (process)
0.000207 blood pressure regulation (process)
0.000007 positive regulation of cell proliferation (process)
0.000000 platelet activation (process)
0.000000 protein polymerization (process)
BLASTX hits:
E-value 4e-16 prot=240..350 DNA=10064792..10064523 fr=453 per=41/111 [EST]
E-value 4e-16 prot=177..238 DNA=10065048..10064869 fr=453 per=25/62 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_000059] [NP_075461]
R-score = 0.007537; GO-score = 0.000207
9926300 bp Chromosome 19 16107331 bp
   
            
1 aa NP_031605 2288 aa

Similarity found to protein:
[12287|NP_031605] | Mus musculus | calcium channel, voltage-dependent, N type, alpha 1B subunit | length=2288 aa
GO annotation:
0.000005 nucleotide binding (function)
0.000003 ion channel activity (function)
0.000011 voltage-gated ion channel activity (function)
0.000010 voltage-gated calcium channel activity (function)
0.000003 cation channel activity (function)
0.000035 calcium channel activity (function)
0.000015 calcium ion binding (function)
0.000004 ATP binding (function)
0.000012 voltage-gated calcium channel complex (component)
0.000007 transport (process)
0.000004 ion transport (process)
0.000006 cation transport (process)
0.000009 calcium ion transport (process)
0.000004 neurotransmitter secretion (process)
0.000042 locomotory behavior (process)
0.000014 regulation of heart contraction (process)
0.000207 blood pressure regulation (process)
0.000006 membrane (component)
0.000005 integral to membrane (component)
BLASTX hits:
E-value 3e-20 prot=1424..1491 DNA=13226426..13226226 fr=2288 per=52/68 [EST]
E-value 6e-20 prot=1257..1311 DNA=13232777..13232613 fr=2288 per=49/55 [EST]
E-value 3e-19 prot=267..326 DNA=13330937..13330758 fr=2288 per=43/60 [EST]
E-value 4e-19 prot=445..514 DNA=13288486..13288277 fr=2288 per=47/70 [EST]
E-value 4e-19 prot=131..182 DNA=13424179..13424024 fr=2288 per=48/52 [EST]
E-value 9e-19 prot=757..896 DNA=13270507..13270055 fr=2288 per=62/151 [EST]
E-value 4e-18 prot=1..94 DNA=13477388..13477098 fr=2288 per=63/97 [EST]
E-value 4e-15 prot=1687..1735 DNA=13201373..13201227 fr=2288 per=41/49 [EST]
E-value 6e-15 prot=1311..1356 DNA=13230867..13230730 fr=2288 per=38/46 [EST]
E-value 2e-12 prot=1636..1687 DNA=13203032..13202871 fr=2288 per=36/54 [EST]
E-value 8e-12 prot=1358..1424 DNA=13228714..13228514 fr=2288 per=59/67 [EST]
E-value 1e-11 prot=356..399 DNA=13305662..13305531 fr=2288 per=38/44 [EST]
CANDIDATE 4
DNA (Note) PROTEIN: [NP_004221]
R-score = 0.010241; GO-score = 0.000164
9926300 bp Chromosome 19 16107331 bp
   
   
1 aa NP_001832 360 aa

Similarity found to protein:
[1269|NP_001832] | Homo sapiens | cannabinoid receptor 2 (macrophage) | length=360 aa
GO annotation:
0.000008 receptor activity (function)
0.000009 cannabinoid receptor activity (function)
0.000020 plasma membrane (component)
0.000015 integral to plasma membrane (component)
0.000018 immune response (process)
0.000017 signal transduction (process)
0.000015 G-protein signaling, coupled to cyclic nucleotide second messenger (process)
0.000164 behavior (process)
BLASTX hits:
E-value 2e-19 prot=6..317 DNA=10196042..10195164 fr=360 per=84/316 [EST]
CANDIDATE 5
DNA (Note) PROTEIN: [NP_006193]
R-score = 0.011104; GO-score = 0.000164
9926300 bp Chromosome 19 16107331 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=471..534 DNA=10434963..10435154 fr=662 per=45/64 [EST]
E-value 1e-14 prot=379..432 DNA=10432698..10432859 fr=662 per=42/54 [EST]
E-value 8e-14 prot=533..574 DNA=10438060..10438185 fr=662 per=37/42 [EST]
E-value 1e-13 prot=242..346 DNA=10430543..10430935 fr=662 per=52/137 [EST]
E-value 9e-11 prot=432..473 DNA=10433053..10433178 fr=662 per=37/42 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.012830; GO-score = 0.000162
9926300 bp Chromosome 19 16107331 bp
   
  
1 aa NP_058060 787 aa

Similarity found to protein:
[16416|NP_058060] | Mus musculus | integrin beta 3 | length=787 aa
GO annotation:
0.000008 receptor activity (function)
0.000005 protein binding (function)
0.000000 cell-substrate junction assembly (process)
0.000013 cell adhesion (process)
0.000011 cell-matrix adhesion (process)
0.000007 integrin-mediated signaling pathway (process)
0.000003 metabolism (process)
0.000009 integrin complex (component)
0.000000 external side of plasma membrane (component)
0.000005 integral to membrane (component)
0.000000 oxidoreductase activity (function)
0.000162 regulation of cell migration (process)
BLASTX hits:
E-value 1e-35 prot=591..786 DNA=14593348..14592749 fr=787 per=94/206 [EST]
CANDIDATE 7
DNA (Note) PROTEIN: [NP_000426]
R-score = 0.013521; GO-score = 0.000162
9926300 bp Chromosome 19 16107331 bp
   
   
1 aa NP_660142 1200 aa

Similarity found to protein:
[3714|NP_660142] | Homo sapiens | jagged 2 isoform b precursor | length=1200 aa
GO annotation:
0.000000 cell fate determination (process)
0.000000 Notch binding (function)
0.000015 calcium ion binding (function)
0.000015 integral to plasma membrane (component)
0.000006 cell cycle (process)
0.000001 Notch signaling pathway (process)
0.000019 cell-cell signaling (process)
0.000006 spermatogenesis (process)
0.000005 sensory perception of sound (process)
0.000007 growth factor activity (function)
0.000000 auditory receptor cell fate commitment (process)
0.000006 membrane (component)
0.000014 cell differentiation (process)
0.000003 T cell differentiation (process)
0.000000 embryonic limb morphogenesis (process)
0.000162 regulation of cell migration (process)
0.000000 regulation of cell proliferation (process)
0.000000 thymic T cell selection (process)
BLASTX hits:
E-value 3e-41 prot=448..703 DNA=15163579..15163019 fr=1200 per=81/262 [EST]
E-value 2e-24 prot=359..524 DNA=15163627..15163028 fr=1200 per=74/202 [EST]
E-value 2e-22 prot=665..821 DNA=15162929..15162483 fr=1200 per=53/159 [EST]
E-value 1e-21 prot=376..525 DNA=15162929..15162498 fr=1200 per=55/155 [EST]
E-value 3e-22 prot=624..818 DNA=15163579..15163019 fr=1200 per=67/202 [EST]
E-value 1e-43 prot=489..681 DNA=15162929..15162444 fr=1200 per=62/195 [EST]
E-value 3e-20 prot=338..492 DNA=15162929..15162483 fr=1200 per=54/166 [EST]
E-value 1e-28 prot=431..665 DNA=15152219..15151416 fr=1200 per=77/293 [EST]
E-value 1e-19 prot=589..783 DNA=15162929..15162483 fr=1200 per=57/195 [EST]
E-value 2e-19 prot=366..492 DNA=15150578..15150084 fr=1200 per=57/165 [EST]
E-value 3e-19 prot=411..546 DNA=15163579..15163079 fr=1200 per=59/167 [EST]
E-value 2e-18 prot=231..411 DNA=15163579..15163028 fr=1200 per=63/201 [EST]
E-value 1e-43 prot=282..451 DNA=15163633..15163019 fr=1200 per=68/209 [EST]
E-value 6e-17 prot=700..859 DNA=15163579..15163019 fr=1200 per=63/193 [EST]
E-value 2e-16 prot=723..816 DNA=15158466..15158179 fr=1200 per=42/97 [EST]
E-value 2e-15 prot=301..412 DNA=15162920..15162498 fr=1200 per=46/143 [EST]
E-value 3e-15 prot=341..427 DNA=15152902..15152645 fr=1200 per=38/87 [EST]
E-value 3e-15 prot=759..826 DNA=15152860..15152660 fr=1200 per=36/68 [EST]
E-value 1e-26 prot=341..556 DNA=15152279..15151416 fr=1200 per=83/292 [EST]
E-value 1e-21 prot=625..701 DNA=15158406..15158179 fr=1200 per=37/77 [EST]
E-value 1e-14 prot=722..824 DNA=15152219..15151785 fr=1200 per=46/147 [EST]
E-value 2e-16 prot=586..706 DNA=15150557..15150084 fr=1200 per=50/158 [EST]
E-value 4e-17 prot=336..449 DNA=15158514..15158179 fr=1200 per=42/118 [EST]
E-value 7e-18 prot=295..455 DNA=15150557..15150081 fr=1200 per=53/173 [EST]
E-value 5e-13 prot=730..825 DNA=15152324..15152022 fr=1200 per=41/101 [EST]
E-value 4e-15 prot=411..592 DNA=15150557..15150084 fr=1200 per=57/192 [EST]
E-value 5e-12 prot=588..662 DNA=15158403..15158182 fr=1200 per=30/75 [EST]
E-value 1e-12 prot=449..525 DNA=15158406..15158179 fr=1200 per=33/77 [EST]
E-value 3e-11 prot=739..897 DNA=15150557..15149964 fr=1200 per=58/201 [EST]
E-value 4e-17 prot=326..412 DNA=15158427..15158179 fr=1200 per=34/87 [EST]
E-value 2e-15 prot=568..626 DNA=15158361..15158176 fr=1200 per=32/63 [EST]
E-value 3e-41 prot=742..828 DNA=15162929..15162576 fr=1200 per=39/118 [EST]
E-value 3e-12 prot=624..783 DNA=15150557..15150084 fr=1200 per=45/170 [EST]
E-value 3e-12 prot=394..446 DNA=15151297..15151136 fr=1200 per=26/54 [EST]
E-value 2e-14 prot=297..375 DNA=15158403..15158176 fr=1200 per=29/79 [EST]
E-value 2e-12 prot=466..524 DNA=15160233..15160057 fr=1200 per=24/59 [EST]
E-value 5e-11 prot=606..669 DNA=15160227..15160024 fr=1200 per=24/68 [EST]
E-value 1e-26 prot=561..622 DNA=15151318..15151136 fr=1200 per=22/62 [EST]
E-value 2e-11 prot=469..522 DNA=15151297..15151136 fr=1200 per=22/54 [EST]
E-value 4e-12 prot=391..451 DNA=15160233..15160048 fr=1200 per=23/62 [EST]
E-value 1e-28 prot=683..737 DNA=15151297..15151136 fr=1200 per=22/55 [EST]
E-value 2e-14 prot=374..417 DNA=15158068..15157937 fr=1200 per=18/45 [EST]
E-value 4e-12 prot=318..390 DNA=15160559..15160338 fr=1200 per=25/75 [EST]
E-value 1e-21 prot=729..783 DNA=15158095..15157937 fr=1200 per=23/56 [EST]
E-value 4e-17 prot=412..454 DNA=15158068..15157937 fr=1200 per=17/44 [EST]
E-value 2e-11 prot=253..451 DNA=15152213..15151416 fr=1200 per=61/280 [EST]
E-value 2e-12 prot=379..427 DNA=15160490..15160341 fr=1200 per=21/51 [EST]
E-value 2e-15 prot=625..668 DNA=15158068..15157937 fr=1200 per=17/45 [EST]
E-value 7e-18 prot=474..568 DNA=15150078..15149755 fr=1200 per=33/110 [EST]
E-value 5e-11 prot=541..602 DNA=15160493..15160341 fr=1200 per=19/63 [EST]
E-value 3e-12 prot=240..376 DNA=15151874..15151416 fr=1200 per=42/167 [EST]
E-value 3e-12 prot=778..837 DNA=15150018..15149854 fr=1200 per=20/65 [EST]
E-value 4e-17 prot=470..537 DNA=15158089..15157916 fr=1200 per=22/68 [EST]
E-value 2e-16 prot=702..739 DNA=15150015..15149890 fr=1200 per=15/43 [EST]
E-value 4e-15 prot=591..613 DNA=15150006..15149938 fr=1200 per=9/23 [EST]
E-value 3e-22 prot=848..911 DNA=15162899..15162648 fr=1200 per=23/84 [EST]
E-value 1e-12 prot=539..592 DNA=15158068..15157937 fr=1200 per=18/58 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.017605; GO-score = 0.000104
9926300 bp Chromosome 19 16107331 bp
   
   
1 aa NP_004145 328 aa

Similarity found to protein:
[5031|NP_004145] | Homo sapiens | pyrimidinergic receptor P2Y6 | length=328 aa
GO annotation:
0.000000 rhodopsin-like receptor activity (function)
0.000008 receptor activity (function)
0.000015 integral to plasma membrane (component)
0.000017 signal transduction (process)
0.000104 G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) (process)
0.000000 purinergic nucleotide receptor activity, G-protein coupled (function)
BLASTX hits:
E-value 8e-12 prot=63..166 DNA=10084985..10085293 fr=328 per=48/105 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.022553; GO-score = 0.000094
9926300 bp Chromosome 19 16107331 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 2e-43 prot=27..199 DNA=11638271..11637753 fr=471 per=85/173 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_004507] [NP_036350] [NP_703194]
R-score = 0.022611; GO-score = 0.000094
9926300 bp Chromosome 19 16107331 bp
   
        
1 aa NP_033287 648 aa

Similarity found to protein:
[20744|NP_033287] | Mus musculus | spermatid perinuclear RNA-binding protein | length=648 aa
GO annotation:
0.000003 DNA binding (function)
0.000008 double-stranded RNA binding (function)
0.000009 single-stranded RNA binding (function)
0.000012 cell motility (process)
0.000094 spermatid development (process)
0.000049 mechanosensory behavior (process)
0.000007 microtubule cytoskeleton (component)
BLASTX hits:
E-value 9e-21 prot=389..447 DNA=10653195..10653371 fr=648 per=50/59 [EST]
E-value 4e-18 prot=500..545 DNA=10654304..10654441 fr=648 per=42/46 [EST]
E-value 2e-14 prot=2..79 DNA=10642150..10642380 fr=648 per=44/78 [EST]
E-value 9e-11 prot=232..279 DNA=10650956..10651105 fr=648 per=36/50 [EST]
E-value 4e-18 prot=544..590 DNA=10654539..10654682 fr=648 per=34/48 [EST]