许培扬博客分享 http://blog.sciencenet.cn/u/xupeiyang 跟踪国际前沿 服务国内科研

博文

衰老基因与人类寿命研究的知识发现

已有 2140 次阅读 2015-10-14 06:05 |个人分类:知识发现|系统分类:科研笔记

知识发现系统和信息平台也是重要的科研信息获取途径和方法。

我的系列博文供大家参考。

信息检索系列博文  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&classid=115380&view=me&from=space

信息分析系列博文  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&classid=114625&view=me&from=space

知识发现系列博文  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&classid=115378&view=me&from=space

信息检索、数据分析、知识发现都是科研人员的必备技能,一旦掌握,事半功倍。

许培扬 知识发现系列博文  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&classid=115378&view=me&from=space

科学研究与知识发现  http://blog.sciencenet.cn/home.php?mod=space&uid=280034&do=blog&id=327994

 

       一项前沿性研究发现,如果某些基因被“删除”,人类寿命可以延长多达60%。科学家发现,如果对200多个基因进行“微调”,让它们变得不活跃,那么就可以让人类寿命延长几十年。

  据英国《每日快报》网站10月12日报道,这项研究发现,在某些有机体身上,这一做法可以让寿命延长多达60%。这会让英国的人均寿命从81岁增加到一百多岁。

http://news.sina.com.cn/w/sy/2015-10-14/doc-ifxirmpz8317354.shtml

A-query: Gene and aging
C-query: human life-span

The B-list contains title words and phrases (terms) that appeared in both the A and the C literature. 951 articles appeared in both literatures and were not included in the process of computing the B-list but can be viewed here. The results of this search are saved under id # 30306 and can be accessed from the start page after you leave this session. There are 1618 terms on the current B-list (601 are predicted to be relevant), which is shown ranked according to predicted relevance. The list can be further trimmed down using the filters listed in the left margin.

To assess whether there appears to be a biologically significant relationship between the AB and BC literatures for specific B-terms, please select one or more B-terms and then click the button to view the corresponding AB and BC literatures. Use Ctrl to select multiple B-terms.

 

http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/edit_b.cgi

发现衰老与寿命的相关基因

job id # 30306 started Tue Oct 13 17:00:09 2015
Max_citations: 50000
Stoplist: /var/www/arrowsmith_uic/data/stopwords_pubmed
Ngram_max: 3
A_query_raw: Gene and aging Tue Oct 13 17:00:17 2015

A query = Gene and aging started Tue Oct 13 17:00:18 2015
A query resulted in 36429 titles
C_query_raw: human life-span Tue Oct 13 17:01:59 2015

C: human life-span 11120

A: Gene and aging 36429

AC: ( Gene and aging ) AND ( human life-span ) 951

C_query_raw: human life-span Tue Oct 13 17:02:03 2015

C: human life-span 11120

A: Gene and aging 36429

AC: ( Gene and aging ) AND ( human life-span ) 951

C query = human life-span started Tue Oct 13 17:02:03 2015
C query resulted in 11120 titles
A AND C query resulted in 951 titles
22152 B-terms ready on Tue Oct 13 17:02:34 2015

Sem_filter:
Genes & Molecular Sequences, and Gene & Protein Names
1618 B-terms left after filter executed Tue Oct 13 17:05:49 2015

B-list on Tue Oct 13 17:06:52 2015
1 adiponectin
2 brca1
3 toll receptor
4 jnk
5 wnt
6 mecp2
7 akt
8 vegf
9 ku70
10 mtor
11 huntingtin
12 frataxin
13 daf-16
14 sirtuin
15 caspase-3
16 microsatellite
17 serotonin transporter gene
18 p27kip1
19 signal regulated kinase
20 p66shc
21 helix loop helix
22 sirt3
23 caspase
24 sir2
25 cd28
26 cyclin dependent kinase
27 nestin
28 dystrophin
29 cdk2
30 mdx
31 rankl
32 pi3k
33 sp1
34 tdp-43
35 sirt1
36 cyclin e
37 htert gene
38 pten
39 jak stat
40 ucp2
41 sod1
42 prohibitin
43 mdm2
44 e2f1
45 cacna1a
46 grp78
47 anti mullerian hormone
48 parkin
49 leptin
50 k ras
51 map kinase
52 p53 tumor suppressor
53 mcl-1
54 gata-4
55 bdnf
56 microrna
57 p53 gene
58 id1
59 transporter gene
60 ts65dn
61 foxo
62 uncoupling protein
63 cip1
64 cd38
65 stat3
66 fat mass
67 prnp
68 swi
69 e polymorphism
70 brca2
71 swi snf
72 telomerase reverse transcriptase
73 klotho
74 cdna
75 cyclin d1
76 globin gene
77 adenovirus mediated gene
78 lrrk2
79 ampk
80 sgs1
81 heat shock factor
82 p16ink4a
83 lkb1
84 shc
85 bmi-1
86 bax
87 nanog
88 nod scid
89 matrix metalloproteinase
90 foxp3
91 foxo3a
92 serial analysis gene
93 peroxiredoxin
94 prion protein
95 caspase-8
96 lpr gene
97 waf1
98 apoe
99 c myc
100 mthfr

http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/view_b_txt.cgi?ID=30306

研究课题实例

请见  AB文献与BC文献

StartA-LiteratureC-LiteratureB-listFilterLiterature

AB literature

 

B-term

 

BC literature

 

Gene and aging brca1human life-span
1:BRCA1 deficiency in skin epidermis leads to selective loss of hair follicle stem cells and their progeny. 2013
Add to clipboard

2: BRG1 is required for formation of senescence-associated heterochromatin foci (SAHF) induced by oncogenic RAS or BRCA1 loss. 2013
Add to clipboard

3: Chromatin remodeling, BRCA1, SAHF and cellular senescence. 2013
Add to clipboard

4: The BRCA1/BARD1-Interacting Protein OLA1 Functions in Centrosome Regulation. 2013
Add to clipboard

5: RAS, cellular senescence and transformation: The BRCA1 DNA repair pathway at the crossroads. 2012
Add to clipboard

6: Oncogenic Ras Regulates BRIP1 Expression to Induce Dissociation of BRCA1 from Chromatin, Inhibit DNA Repair, and Promote Senescence. 2011
Add to clipboard

7: The interplay between BRCA1 and 53BP1 influences death, aging, senescence and cancer. 2010
Add to clipboard

8: Resveratrol induces senescence-like growth inhibition of U-2 OS cells associated with the instability of telomeric DNA and upregulation of BRCA1. 2009
Add to clipboard

9: Absence of full-length Brca1 sensitizes mice to oxidative stress and carcinogen-induced tumorigenesis in the esophagus and forestomach. 2007
Add to clipboard

10: High prevalence of BRCA1 deletions in BRCAPRO-positive patients with high carrier probability. 2007
Add to clipboard

11: Negative selection on BRCA1 susceptibility alleles sheds light on the population genetics of late-onset diseases and aging theory. 2007
Add to clipboard

12: ATM-Chk2-p53 activation prevents tumorigenesis at an expense of organ homeostasis upon Brca1 deficiency. 2006
Add to clipboard

13: FANCL replaces BRCA1 as the likely ubiquitin ligase responsible for FANCD2 monoubiquitination. 2004
Add to clipboard

14: Identification and evaluation of 55 genetic variations in the BRCA1 and the BRCA2 genes of patients from 50 Japanese breast cancer families. 2004
Add to clipboard

15: Uterus hyperplasia and increased carcinogen-induced tumorigenesis in mice carrying a targeted mutation of the Chk2 phosphorylation site in Brca1. 2004
Add to clipboard

16: Senescence, aging, and malignant transformation mediated by p53 in mice lacking the Brca1 full-length isoform. 2003
Add to clipboard

17: Average age-specific cumulative risk of breast cancer according to type and site of germline mutations in BRCA1 and BRCA2 estimated from multiple-case breast cancer families attending Australian family cancer clinics. 2003
Add to clipboard

18: Loss of nuclear BRCA1 localization in breast carcinoma is age dependent. 2002
Add to clipboard

19:BRCA1 gene sequence variation in centenarians. 2001
Add to clipboard

20: Estrogens, BRCA1, and breast cancer. 2000
Add to clipboard

21: Modeling the probability that Ashkenazi Jewish women carry a founder mutation in BRCA1 or BRCA2. 1999
Add to clipboard

22: Detection of heterozygous truncating mutations in the BRCA1 and APC genes by using a rapid screening assay in yeast. 1997
Add to clipboard

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

1: When parents disclose BRCA1/2 test results: Their communication and perceptions of offspring response. 2012
Add to clipboard

2: CASP8 D302H polymorphism delays the age of onset of breast cancer in BRCA1 and BRCA2 carriers. 2010
Add to clipboard

3:BRCA1 involvement in toxicological responses and human cancer etiology. 2009
Add to clipboard

4:Brca1 heterozygous mice have shortened life span and are prone to ovarian tumorigenesis with haploinsufficiency upon ionizing irradiation. 2007
Add to clipboard

 

 

 

 

 

 

 

 

 

 

http://arrowsmith.psych.uic.edu/cgi-bin/arrowsmith_uic/show_sentences.cgi

 

分子生物学数据库 Molecular Biology Databases

Symbol

Name
ID

Brca1
breast cancer 1, early onset  早期乳腺癌基因1
MGI:104537
Feature Type
protein coding gene
Genetic Map
Chromosome 11
65.18 cM, cytoband D
Detailed Genetic Map ± 1 cM


Mapping data(25)
Sequence Map
Chr11:101488764-101551955bp, - strand
From VEGA annotation of GRCm38

<!-- handle end   63192 bp  ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer

 

 


Mouse Genome Browser
Vertebrate
homology
HomoloGene:5276  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken

HCOP human homology predictions:BRCA1
Protein SuperFamily: transcriptional regulator, BRCA1 type
Gene Tree: Brca1

Human
homologs
BRCA1, breast cancer 1, early onset
Orthology source: HGNC, HomoloGene

IDs:
NCBI Gene ID: 672
neXtProt AC:NX_P38398

Human Synonyms: BRCAI, BRCC1, BROVCA1, FANCS, IRIS, PNCA4, PPP1R53, PSCP, RNF53

Human Chr (Location):17q21; chr17:43044295-43125483(-)  GRCh38.p2

Disease Associations: (3)Diseases Associated with Human BRCA1

Mutations,
alleles, and
phenotypes
All mutations/alleles(89) :Gene trapped(66)Targeted(23)
Genomic Mutations involving Brca1 (1)
Incidental mutations (data fromMutagenetix, APF, CvDC)

Homozygous null mutants are embryonic lethal with abnormalities including growth retardation, neural tube defects, and mesoderm abnormalities; conditional mutations cause genetic instability and enhanced tumor formation; mutants with truncated BRCA1 protein survive, have a kinky tail, pigmentation anomalies, male infertility and increased tumor incidence.

Human Diseases Modeled in Mice Using Brca1 (1)   Mutations Annotated to Human Diseases (8)   Phenotype Images(2)
Interactions
Brca1 interacts with 236 markers (Mir1a-1, Mir1a-2, Mir1b, ...)
Gene Ontology
(GO)
classifications
Expression
Literature Summary: (38 records)
Data Summary:Results (418)   Tissues (216)   Images (41)   Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ287
Northern blot28
Western blot3
RT-PCR100
cDNA source data(136)
Other mouse links: Allen InstituteGEOExpression Atlas
Other vertebrate links: GEISHA BRCA1; Xenbasebrca1NEW
Molecular
reagents
All nucleic(159)Genomic(16)cDNA(137)Primer pair(5)Other(1)
Microarray probesets(6)
Other database
links
VEGA Gene Model OTTMUSG00000002870 (Evidence)
Ensembl Gene Model ENSMUSG00000017146 (Evidence)
Entrez Gene 12189 (Evidence)
UniGene 244975
DFCI TC1577432, TC1625383, TC1693006
DoTS DT.101407283, DT.529940, DT.97414487
NIA Mouse Gene Index U033456
EC 6.3.2.-
Consensus CDS Project CCDS25474.1
International Mouse Phenotyping Consortium Status Brca1
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomicOTTMUSG00000002870VEGA Gene Model | MGI Sequence Detail63192C57BL/6J±  kb
transcriptOTTMUST00000005869VEGA | MGI Sequence Detail6572Not Applicable
polypeptideOTTMUSP00000002773VEGA | MGI Sequence Detail1812Not Applicable

For the selected sequences download in FASTA format forward to MouseBLASTAll sequences(61)RefSeq(7)UniProt(8)

Polymorphisms
All PCR and RFLP(4): PCR(1)RFLP(3)SNPs within 2kb(280 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterProIPR031099BRCA1-associated
InterProIPR025994BRCA1, serine-rich domain
InterProIPR001357BRCT domain
InterProIPR011364Breast cancer type 1 susceptibility protein (BRCA1)
InterProIPR018957Zinc finger, C3HC4 RING-type
InterProIPR013083Zinc finger, RING/FYVE/PHD-type
InterProIPR001841Zinc finger, RING-type
InterProIPR017907Zinc finger, RING-type, conserved site
References
(Earliest) J:31493Hall JM, et al., Linkage of early-onset familial breast cancer to chromosome 17q21. Science. 1990 Dec 21;250(4988):1684-9
(Latest) J:224588Kato Y, et al., FANCB is essential in the male germline and regulates H3K9 methylation on the sex chromosomes during meiosis. Hum Mol Genet. 2015 Sep 15;24(18):5234-49
All references(249)
Disease annotation references (5)
Other
accession IDs
MGD-MRK-25968
Contributing Projects:

http://www.informatics.jax.org/marker/key/24690

 

 

 

 

 

 

 



http://wap.sciencenet.cn/blog-280034-927969.html

上一篇:青蒿素研究的国际较量
下一篇:对症下药 药到病除

1 gaoyz123

该博文允许注册用户评论 请点击登录 评论 (8 个评论)

数据加载中...
扫一扫,分享此博文

Archiver|手机版|科学网 ( 京ICP备07017567号-12 )

GMT+8, 2021-5-15 05:02

Powered by ScienceNet.cn

Copyright © 2007- 中国科学报社

返回顶部