Analysis of Asthma chr14
Analysis of Asthma chr14 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Asthma chr14
Method: Md
Chromosome: 14
Genomic position start-stop: 19728271-26596587
length: 6868317
Band: q11.2-q12
 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 chr14. 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_858043]
R-score = 0.000805; GO-score = 0.000356
19728271 bp Chromosome 14 26596587 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 2e-12 prot=42..306 DNA=23854792..23855565 fr=359 per=78/267 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_054764]
R-score = 0.037167; GO-score = 0.000078
19728271 bp Chromosome 14 26596587 bp
   
   
1 aa NP_034830 864 aa

Similarity found to protein:
[16835|NP_034830] | Mus musculus | low density lipoprotein receptor | length=864 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 protein binding (function)
0.000010 extracellular space (component)
0.000016 endosome (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)
0.000000 cholesterol homeostasis (process)
BLASTX hits:
E-value 3e-11 prot=38..143 DNA=22414986..22415297 fr=864 per=37/106 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_004986]
R-score = 0.040907; GO-score = 0.000076
19728271 bp Chromosome 14 26596587 bp
   
   
1 aa NP_002417 470 aa

Similarity found to protein:
[4321|NP_002417] | Homo sapiens | matrix metalloproteinase 12 preproprotein | length=470 aa
GO annotation:
0.000000 peptidoglycan metabolism (process)
0.000076 macrophage elastase activity (function)
0.000015 calcium ion binding (function)
0.000021 extracellular matrix (sensu Metazoa) (component)
0.000023 proteolysis (process)
0.000012 cell motility (process)
0.000003 zinc ion binding (function)
BLASTX hits:
E-value 9e-18 prot=107..211 DNA=22381440..22381766 fr=470 per=50/113 [EST]
CANDIDATE 4
DNA (Note) PROTEIN: [NP_065971]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.042345; GO-score = 0.000065
19728271 bp Chromosome 14 26596587 bp
   
       
1 aa NP_477197 1883 aa

Similarity found to protein:
[33505|NP_477197] | Drosophila melanogaster | Chd1-P1 CG3733-PA | length=1883 aa
GO annotation:

0.000000 chromatin (component)
0.000008 DNA helicase activity (function)
0.000065 chromatin binding (function)
0.000006 helicase activity (function)
0.000004 ATP binding (function)
0.000003 nucleus (component)
0.000000 polytene chromosome puff (component)
0.000000 polytene chromosome interband (component)
0.000000 chromatin assembly or disassembly (process)
0.000005 regulation of transcription from RNA polymerase II promoter (process)
0.000000 ATP-dependent helicase activity (function)
BLASTX hits:
E-value 2e-16 prot=850..943 DNA=20941304..20941011 fr=1883 per=49/98 [EST] [P]
E-value 9e-16 prot=544..629 DNA=20946560..20946312 fr=1883 per=44/86 [EST] [P]
E-value 1e-12 prot=732..812 DNA=20943458..20943213 fr=1883 per=43/83 [EST] [P]
CANDIDATE 5
DNA (Note)
R-score = 0.044474; GO-score = 0.000065
19728271 bp Chromosome 14 26596587 bp
   
   
1 aa NP_572530 749 aa

Similarity found to protein:
[31846|NP_572530] | Drosophila melanogaster | CG7055 gene product CG7055-PA | length=749 aa
GO annotation:
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000009 transcription coactivator activity (function)
0.000005 protein binding (function)
0.000003 nucleus (component)
0.000000 chromatin assembly or disassembly (process)
0.000002 chromatin remodeling (process)
0.000001 general RNA polymerase II transcription factor activity (function)
0.000001 chromatin remodeling complex (component)
0.000000 brahma complex (component)
0.000000 positive regulation of transcription, DNA-dependent (process)
BLASTX hits:
E-value 1e-16 prot=213..296 DNA=20701078..20701326 fr=749 per=48/84 [EST]
E-value 5e-25 prot=54..123 DNA=20700614..20700811 fr=749 per=38/73 [EST]
E-value 5e-25 prot=119..222 DNA=20700798..20701100 fr=749 per=37/104 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.044819; GO-score = 0.000065
19728271 bp Chromosome 14 26596587 bp
   
   
1 aa NP_524354 430 aa

Similarity found to protein:
[41836|NP_524354] | Drosophila melanogaster | Chromatin assembly factor 1 subunit CG4236-PA | length=430 aa
GO annotation:
0.000010 negative regulation of transcription from RNA polymerase II promoter (process)
0.000065 chromatin binding (function)
0.000003 nucleus (component)
0.000003 transcription factor complex (component)
0.000000 chromatin assembly complex (component)
0.000000 polytene chromosome (component)
0.000004 DNA repair (process)
0.000001 nucleosome assembly (process)
0.000000 DNA replication-dependent nucleosome assembly (process)
0.000049 chromatin silencing (process)
0.000007 transcription (process)
0.000000 chorion gene amplification (process)
0.000000 histone methylation (process)
0.000000 histone acetylation (process)
0.000000 nucleosome spacing (process)
0.000001 chromatin remodeling complex (component)
0.000000 NURF complex (component)
0.000000 ACF complex (component)
0.000000 Myb complex (component)
0.000000 histone acetyltransferase binding (function)
0.000000 ESC/E(Z) complex (component)
0.000000 histone binding (function)
0.000000 nucleosome mobilization (process)
0.000000 histone deacetylase binding (function)
0.000000 histone lysine N-methyltransferase activity (H3-K9 specific) (function)
0.000000 histone lysine N-methyltransferase activity (H3-K27 specific) (function)
BLASTX hits:
E-value 1e-177 prot=91..419 DNA=21102046..21103026 fr=430 per=277/329 [EST]
E-value 1e-177 prot=48..89 DNA=21101918..21102043 fr=430 per=31/42 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.046257; GO-score = 0.000065
19728271 bp Chromosome 14 26596587 bp
   
   
1 aa NP_609148 861 aa

Similarity found to protein:
[34062|NP_609148] | Drosophila melanogaster | CG7154-PA | length=861 aa
GO annotation:
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000003 nucleus (component)
BLASTX hits:
E-value 5e-21 prot=247..391 DNA=23288563..23288970 fr=861 per=57/145 [EST]
CANDIDATE 8
DNA (Note)
R-score = 0.048041; GO-score = 0.000065
19728271 bp Chromosome 14 26596587 bp
   
  
1 aa NP_003070 411 aa

Similarity found to protein:
[6605|NP_003070] | Homo sapiens | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin e1 | length=411 aa
GO annotation:
0.000009 nuclear chromosome (component)
0.000003 DNA binding (function)
0.000065 chromatin binding (function)
0.000009 transcription coactivator activity (function)
0.000005 protein binding (function)
0.000000 nucleosome disassembly (process)
0.000005 regulation of transcription from RNA polymerase II promoter (process)
0.000010 N-acetyltransferase activity (function)
0.000000 chromatin modification (process)
0.000000 transcriptional repressor complex (component)
0.000000 negative regulation of transcription, DNA-dependent (process)
BLASTX hits:
E-value 1e-164 prot=270..410 DNA=20701320..20701742 fr=411 per=123/141 [EST]
E-value 1e-164 prot=24..100 DNA=20700581..20700811 fr=411 per=72/77 [EST]
E-value 1e-164 prot=96..189 DNA=20700798..20701079 fr=411 per=73/94 [EST]
E-value 1e-164 prot=189..271 DNA=20701081..20701326 fr=411 per=67/83 [EST]
CANDIDATE 9
DNA (Note) PROTEIN: [NP_005475] (Itself)
R-score = 0.050572; GO-score = 0.000064
19728271 bp Chromosome 14 26596587 bp
   
      
1 aa NP_005475 534 aa

Similarity found to protein:
[10038|NP_005475] | Homo sapiens | poly (ADP-ribosyl) transferase-like 2 | length=534 aa
GO annotation:
0.000003 DNA binding (function)
0.000064 NAD+ ADP-ribosyltransferase activity (function)
0.000003 nucleus (component)
0.000004 DNA repair (process)
0.000056 protein amino acid ADP-ribosylation (process)
0.000000 transferase activity, transferring glycosyl groups (function)
BLASTX hits:
E-value 5e-40 prot=440..534 DNA=19895393..19895794 fr=534 per=94/134 [EST]
E-value 3e-25 prot=266..332 DNA=19893753..19894034 fr=534 per=67/94 [EST]
E-value 2e-19 prot=217..265 DNA=19892802..19892948 fr=534 per=48/49 [EST]
E-value 2e-16 prot=327..374 DNA=19894292..19894435 fr=534 per=45/48 [EST]
E-value 1e-11 prot=130..164 DNA=19890243..19890347 fr=534 per=34/35 [EST]
E-value 9e-11 prot=184..220 DNA=19892142..19892252 fr=534 per=36/37 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_115828]
R-score = 0.056326; GO-score = 0.000061
19728271 bp Chromosome 14 26596587 bp
   
  
1 aa NP_067541 696 aa

Similarity found to protein:
[59091|NP_067541] | Mus musculus | junctophilin 2 | length=696 aa
GO annotation:
0.000005 protein binding (function)
0.000006 membrane fraction (component)
0.000005 endoplasmic reticulum (component)
0.000013 microsome (component)
0.000005 carbohydrate metabolism (process)
0.000061 elevation of cytosolic calcium ion concentration (process)
0.000006 development (process)
0.000000 xylose isomerase activity (function)
0.000005 integral to membrane (component)
0.000000 sarcoplasmic reticulum (component)
0.000003 Z disc (component)
BLASTX hits:
E-value 1e-45 prot=3..131 DNA=23116494..23116111 fr=696 per=80/129 [EST]
E-value 2e-39 prot=127..366 DNA=23115507..23114788 fr=696 per=114/248 [EST]