Analysis of Alzheimer disease 6
Analysis of Alzheimer disease 6 G2D Home
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REASONS FOR ASSOCIATION OVERVIEW OF CANDIDATES BEST 10 CANDIDATES BEST 100 CANDIDATES

CHROMOSOMAL REGION
Disease mapped: Alzheimer disease 6
Method: Md
Chromosome: 10
Genomic position start-stop: 40300000-135413628
length: 95113629
Band: 10q
 LINKS

EntrezGene: [64851]

MEDLINE: [11125142] [11125144]

OMIM: [605526] XplorMed

REASONS FOR ASSOCIATION

MEDLINE QUERY
A set of 2379 papers related to this disease was derived from MEDLINE using the query:
Alzheimer [tw] AND disease [tw] AND 6 [tw]

MESH-C TERMS
The MeSH-C terms associated to the derived papers were collected.

Here you can see the terms ordered by the number of papers where they were found (number in brackets).

Alzheimer Disease [2041]
Dementia [341]
Parkinson Disease [130]
Dementia, Vascular [116]
Nerve Degeneration [75]
Down Syndrome [68]
Disease Models, Animal [59]
Dementia, Multi-Infarct [53]
Disease Progression [46]
Atrophy [45]
We show here only the 10 most frequent. You can also see the complete list of 345 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.

0.010471 copper ion homeostasis (process)
0.010053 amyloid protein (function)
0.006981 cell death (process)
0.006281 beta-aspartyl-peptidase activity (function)
0.005777 serine-type endopeptidase inhibitor activity (function)
0.005297 arylesterase activity (function)
0.005253 dopamine biosynthesis from tyrosine (process)
0.005253 catecholamine metabolism (process)
0.005253 tyrosine 3-monooxygenase activity (function)
We show here only the top 10. You can also see the complete list of 910 GO terms.

Each name is linked to the corresponding term description by GO. The number indicates the strength of association to Alzheimer disease 6. 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 = 0.002301; GO-score = 0.005777
40300000 bp Chromosome 10 135413628 bp
   
   
1 aa NP_000085 2944 aa

Similarity found to protein:
[1294|NP_000085] | Homo sapiens | alpha 1 type VII collagen precursor | length=2944 aa
GO annotation:
0.005777 serine-type endopeptidase inhibitor activity (function)
0.000315 structural molecule activity (function)
0.000351 protein binding (function)
0.000000 collagen type VII (component)
0.000986 basement membrane (component)
0.000521 cytoplasm (component)
0.000000 phosphate transport (process)
0.000272 cell adhesion (process)
0.000329 epidermis development (process)
BLASTX hits:
E-value 1e-14 prot=33..168 DNA=116032892..116033296 fr=2944 per=49/137 [EST]
CANDIDATE 2
DNA (Note) PROTEIN: [NP_000305]
R-score = 0.003625; GO-score = 0.005777
40300000 bp Chromosome 10 135413628 bp
   
   
1 aa NP_599149 514 aa

Similarity found to protein:
[43991|NP_599149] | Drosophila melanogaster | Pten-P3 CG5671-PC | length=514 aa
GO annotation:
0.000048 actin binding (function)
0.000058 phosphoprotein phosphatase activity (function)
0.000046 protein tyrosine phosphatase activity (function)
0.000022 non-membrane spanning protein tyrosine phosphatase activity (function)
0.005777 serine-type endopeptidase inhibitor activity (function)
0.000069 protein amino acid dephosphorylation (process)
0.002416 apoptosis (process)
0.000305 cytoskeleton organization and biogenesis (process)
0.000055 actin filament organization (process)
0.000272 cell adhesion (process)
0.000000 tracheal epithelial cell fate determination (sensu Insecta) (process)
0.000000 protein tyrosine/serine/threonine phosphatase activity (function)
0.000349 cell proliferation (process)
0.000137 insulin receptor signaling pathway (process)
0.000079 regulation of cell shape (process)
0.000000 regulation of cell size (process)
0.000000 organ morphogenesis (process)
0.000000 tissue development (process)
0.000000 phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (function)
0.000000 negative regulation of cell growth (process)
0.000000 regulation of body size (process)
0.000000 negative regulation of body size (process)
0.000000 response to starvation (process)
0.000000 negative regulation of progression through cell cycle (process)
0.000000 negative regulation of cell size (process)
0.000000 negative regulation of growth (process)
0.000000 regulation of organ size (process)
0.000000 negative regulation of organ size (process)
0.000000 negative regulation of insulin receptor signaling pathway (process)
0.000000 phosphoinositide dephosphorylation (process)
0.000000 cellular physiological process (process)
BLASTX hits:
E-value 4e-22 prot=93..172 DNA=89682750..89682989 fr=514 per=50/80 [EST]
CANDIDATE 3
DNA (Note) PROTEIN: [NP_001005368] [NP_005665] [NP_008886] [NP_008904] [NP_660355]

This candidate may be overlapping with a pseudogene (Note)
R-score = 0.008688; GO-score = 0.005777
40300000 bp Chromosome 10 135413628 bp
   
  
1 aa NP_610289 593 aa

Similarity found to protein:
[35682|NP_610289] | Drosophila melanogaster | az2 gene product CG1605-PA | length=593 aa
GO annotation:

0.000000 nucleic acid binding (function)
0.005777 serine-type endopeptidase inhibitor activity (function)
0.000344 nucleus (component)
0.000081 regulation of transcription from RNA polymerase II promoter (process)
0.000068 zinc ion binding (function)
0.000349 cell proliferation (process)
0.000000 transcription regulator activity (function)
BLASTX hits:
E-value 2e-19 prot=368..572 DNA=42408685..42408092 fr=593 per=68/207 [EST] [P]
E-value 4e-18 prot=376..570 DNA=42408913..42408347 fr=593 per=62/197 [EST] [P]
E-value 8e-17 prot=320..572 DNA=42409513..42408764 fr=593 per=77/262 [EST] [P]
E-value 9e-16 prot=356..544 DNA=42408628..42408092 fr=593 per=57/189 [EST] [P]
E-value 5e-13 prot=311..569 DNA=42153695..42152925 fr=593 per=72/268 [EST] [P]
E-value 4e-11 prot=368..564 DNA=42151924..42151352 fr=593 per=59/201 [EST] [P]
E-value 3e-20 prot=372..569 DNA=43460110..43459532 fr=593 per=65/201 [EST] [P]
E-value 6e-20 prot=376..573 DNA=43372745..43372173 fr=593 per=65/201 [EST] [P]
E-value 5e-19 prot=406..572 DNA=43297948..43298436 fr=593 per=59/169 [EST] [P]
E-value 7e-18 prot=408..573 DNA=43339914..43340402 fr=593 per=58/168 [EST] [P]
E-value 2e-17 prot=376..569 DNA=43372829..43372266 fr=593 per=62/197 [EST] [P]
E-value 3e-17 prot=426..569 DNA=43372943..43372518 fr=593 per=49/146 [EST] [P]
E-value 3e-17 prot=421..569 DNA=43460134..43459700 fr=593 per=52/150 [EST] [P]
E-value 3e-17 prot=370..554 DNA=43432291..43432827 fr=593 per=59/188 [EST] [P]
E-value 6e-17 prot=406..567 DNA=43372916..43372440 fr=593 per=50/163 [EST] [P]
E-value 5e-16 prot=376..572 DNA=43431973..43432542 fr=593 per=62/200 [EST] [P]
E-value 1e-14 prot=420..572 DNA=43297906..43298352 fr=593 per=50/154 [EST] [P]
E-value 2e-14 prot=376..580 DNA=43372661..43372092 fr=593 per=61/206 [EST] [P]
E-value 3e-12 prot=376..548 DNA=43339911..43340408 fr=593 per=51/177 [EST] [P]
E-value 3e-12 prot=545..591 DNA=43340399..43340536 fr=593 per=13/47 [EST] [P]
CANDIDATE 4
DNA (Note)
R-score = 0.010529; GO-score = 0.005234
40300000 bp Chromosome 10 135413628 bp
   
    
1 aa NP_599113 443 aa

Similarity found to protein:
[47877|NP_599113] | Drosophila melanogaster | tws-P2 CG6235-PE | length=443 aa
GO annotation:
0.000000 mitotic anaphase (process)
0.000000 protein phosphatase type 2A activity (function)
0.000000 protein phosphatase type 2A complex (component)
0.000169 MAPKKK cascade (process)
0.000000 embryonic development (sensu Insecta) (process)
0.000521 cytoplasm (component)
0.000069 protein amino acid dephosphorylation (process)
0.000167 response to stress (process)
0.000094 defense response (process)
0.005234 chromosome segregation (process)
0.001730 regulation of mitosis (process)
0.000000 sensory organ development (process)
0.000000 imaginal disc pattern formation (process)
0.000022 protein phosphatase type 2A regulator activity (function)
0.000073 Wnt receptor signaling pathway (process)
BLASTX hits:
E-value 2e-29 prot=266..351 DNA=133604376..133604633 fr=443 per=70/86 [EST]
E-value 3e-29 prot=351..442 DNA=133612523..133612798 fr=443 per=73/92 [EST]
E-value 3e-20 prot=210..264 DNA=133602138..133602302 fr=443 per=50/55 [EST]
E-value 9e-19 prot=151..219 DNA=133600812..133601018 fr=443 per=47/69 [EST]
E-value 2e-17 prot=58..118 DNA=133596875..133597057 fr=443 per=47/61 [EST]
CANDIDATE 5
DNA (Note)
R-score = 0.011277; GO-score = 0.005234
40300000 bp Chromosome 10 135413628 bp
   
   
1 aa NP_476749 411 aa

Similarity found to protein:
[41446|NP_476749] | Drosophila melanogaster | aur-P1 CG3068-PA | length=411 aa
GO annotation:
0.000195 protein kinase activity (function)
0.000162 protein serine/threonine kinase activity (function)
0.000025 receptor signaling protein serine/threonine kinase activity (function)
0.000037 protein-tyrosine kinase activity (function)
0.000091 ATP binding (function)
0.000559 centrosome (component)
0.000192 protein amino acid phosphorylation (process)
0.000215 microtubule-based process (process)
0.005234 chromosome segregation (process)
0.000461 mitosis (process)
0.000000 centrosome cycle (process)
0.000000 mitotic centrosome separation (process)
0.000032 intracellular signaling cascade (process)
0.000000 asymmetric protein localization during cell fate commitment (process)
BLASTX hits:
E-value 2e-15 prot=320..367 DNA=115990073..115990216 fr=411 per=27/48 [EST]
E-value 2e-15 prot=291..325 DNA=115989964..115990080 fr=411 per=21/39 [EST]
CANDIDATE 6
DNA (Note)
R-score = 0.011852; GO-score = 0.005234
40300000 bp Chromosome 10 135413628 bp
   
   
1 aa NP_611796 171 aa

Similarity found to protein:
[37713|NP_611796] | Drosophila melanogaster | CG12227-PA | length=171 aa
GO annotation:
0.000169 regulation of progression through cell cycle (process)
0.000000 nuclear ubiquitin ligase complex (component)
0.000000 ubiquitin-protein ligase activity (function)
0.001707 proteolysis (process)
0.005234 chromosome segregation (process)
0.000461 mitosis (process)
0.000000 centromeric DNA binding (function)
BLASTX hits:
E-value 3e-12 prot=60..149 DNA=103830383..103830111 fr=171 per=42/93 [EST]
CANDIDATE 7
DNA (Note)
R-score = 0.011967; GO-score = 0.005234
40300000 bp Chromosome 10 135413628 bp
   
  
1 aa NP_599116 248 aa

Similarity found to protein:
[|NP_599116] | | | length=248 aa
GO annotation:
0.000169 regulation of progression through cell cycle (process)
0.000000 diacylglycerol-activated phospholipid-dependent protein kinase C inhibitor activity (function)
0.000351 protein binding (function)
0.000344 nucleus (component)
0.000000 tryptophan hydroxylase activation (process)
0.005234 chromosome segregation (process)
0.000112 Ras protein signal transduction (process)
0.000000 photoreceptor cell differentiation (sensu Endopterygota) (process)
0.000185 learning and/or memory (process)
0.000349 cell proliferation (process)
0.000000 olfactory learning (process)
0.000013 protein kinase C inhibitor activity (function)
0.000000 maintenance of oocyte identity (sensu Insecta) (process)
0.000000 tryptophan hydroxylase activator activity (function)
0.000000 protein domain specific binding (function)
0.000000 transcription regulator activity (function)
0.000000 ring canal (sensu Insecta) (component)
0.000000 mitotic cell cycle, embryonic (process)
0.000000 oocyte microtubule cytoskeleton polarization (sensu Insecta) (process)
BLASTX hits:
E-value 6e-95 prot=4..178 DNA=107430720..107431244 fr=248 per=131/175 [EST]
E-value 6e-95 prot=179..248 DNA=107431244..107431453 fr=248 per=56/70 [EST]
CANDIDATE 8
DNA (Note) PROTEIN: [NP_004514]
R-score = 0.012197; GO-score = 0.005234
40300000 bp Chromosome 10 135413628 bp
   
   
1 aa NP_476817 1121 aa

Similarity found to protein:
[35293|NP_476817] | Drosophila melanogaster | neb-P1 CG10718-PA | length=1121 aa
GO annotation:
0.000169 regulation of progression through cell cycle (process)
0.000022 chromatin binding (function)
0.001047 microtubule motor activity (function)
0.000561 structural constituent of cytoskeleton (function)
0.000091 ATP binding (function)
0.000356 kinesin complex (component)
0.000056 protein targeting (process)
0.000894 intracellular protein transport (process)
0.000227 microtubule-based movement (process)
0.005234 chromosome segregation (process)
0.000000 mitotic chromosome condensation (process)
0.000054 meiosis (process)
0.000000 protein phosphatase 1 binding (function)
0.000000 plus-end-directed microtubule motor activity (function)
0.000000 oogenesis (sensu Insecta) (process)
0.000000 ovarian follicle cell development (sensu Insecta) (process)
0.000000 mitotic cell cycle, embryonic (process)
BLASTX hits:
E-value 5e-13 prot=409..517 DNA=94363115..94363393 fr=1121 per=51/109 [EST]
CANDIDATE 9
DNA (Note)
R-score = 0.012485; GO-score = 0.005191
40300000 bp Chromosome 10 135413628 bp
  
  
1 aa NP_665805 262 aa

Similarity found to protein:
[118472|NP_665805] | Homo sapiens | hypothetical protein MGC30006 | length=262 aa
GO annotation:
0.005191 microtubule cytoskeleton organization and biogenesis (process)
0.000000 spindle pole (component)
0.000067 microtubule organizing center (component)
0.000059 cytoplasmic microtubule (component)
0.000496 protein complex assembly (process)
0.000238 microtubule nucleation (process)
BLASTX hits:
E-value 1e-36 prot=184..262 DNA=135007346..135007582 fr=262 per=79/79 [EST]
E-value 8e-35 prot=76..143 DNA=135005409..135005612 fr=262 per=68/68 [EST]
E-value 2e-16 prot=144..184 DNA=135005799..135005921 fr=262 per=41/41 [EST]
CANDIDATE 10
DNA (Note) PROTEIN: [NP_006650]
R-score = 0.012657; GO-score = 0.005191
40300000 bp Chromosome 10 135413628 bp
  
      
1 aa NP_598516 905 aa

Similarity found to protein:
[74237|NP_598516] | Mus musculus | tubulin, gamma complex associated protein 2 | length=905 aa
GO annotation:
0.005191 microtubule cytoskeleton organization and biogenesis (process)
0.000000 spindle pole (component)
0.000067 microtubule organizing center (component)
0.000149 microtubule (component)
BLASTX hits:
E-value 3e-28 prot=194..276 DNA=134989497..134989243 fr=905 per=71/85 [EST]
E-value 1e-27 prot=342..404 DNA=134988374..134988186 fr=905 per=60/63 [EST]
E-value 4e-27 prot=269..353 DNA=134988943..134988683 fr=905 per=70/87 [EST]
E-value 4e-26 prot=453..514 DNA=134984709..134984524 fr=905 per=61/62 [EST]
E-value 4e-22 prot=574..632 DNA=134981316..134981140 fr=905 per=55/59 [EST]
E-value 5e-20 prot=1..54 DNA=134998626..134998465 fr=905 per=51/54 [EST]
E-value 5e-19 prot=789..861 DNA=134977169..134976957 fr=905 per=53/73 [EST]
E-value 3e-18 prot=153..207 DNA=134993796..134993632 fr=905 per=46/55 [EST]
E-value 9e-18 prot=716..763 DNA=134978906..134978763 fr=905 per=45/48 [EST]
E-value 2e-17 prot=404..454 DNA=134985659..134985507 fr=905 per=44/51 [EST]
E-value 4e-17 prot=632..675 DNA=134980900..134980769 fr=905 per=42/44 [EST]
E-value 1e-16 prot=514..575 DNA=134983996..134983811 fr=905 per=57/62 [EST]
E-value 8e-15 prot=50..93 DNA=134995801..134995670 fr=905 per=43/44 [EST]
E-value 1e-14 prot=676..717 DNA=134979686..134979561 fr=905 per=41/42 [EST]