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虚拟细胞生物学研究的知识发现

已有 3108 次阅读 2012-7-26 14:09 |个人分类:知识发现|系统分类:科研笔记| 知识, 生物学

 
      虚拟生物学的概念其实由来已久,早在好几年前,科学家们就希望能在电脑中重建一个分子级别的生命体,这样就能了解生物体各部分如何协同工作,将可以把生物学提升到一个新的水平。到时,生物学深入了解生命就如同工程师对他们所修建的桥梁和飞机一样了如指掌了。
 
Start A-Literature C-Literature B-list Filter Literature
A-query: Virtual Cell Biology
C-query: Genotype

The B-list contains title words and phrases (terms) that appeared in both the A and the C literature. 7articles 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 # 14273 and can be accessed from the start page after you leave this session. There are 257 terms on the current B-list (虚拟细胞生物学与基因相关知识概念79个,对科研选题与进行中的科研课题有一定参考价值 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.

 
 
 
job id # 14273 started Thu Jul 26 00:55:40 2012
Max_citations: 50000
Stoplist: /var/www/arrowsmith_uic/data/stopwords_pubmed
Ngram_max: 3
A_query_raw: Virtual Cell BiologyThu Jul 26 00:55:57 2012

A query = Virtual Cell Biology started Thu Jul 26 00:55:57 2012
A query resulted in 361 titles
C_query_raw: Virtual Cell Biology Thu Jul 26 00:56:01 2012

C: Virtual Cell Biology 361

A: pubmed_query_A 361

AC: ( Virtual Cell Biology ) AND ( Virtual Cell Biology ) 361

C_query_raw: Genotype Thu Jul 26 00:56:29 2012

C: Genotype 286384

A: pubmed_query_A 361

AC: ( Virtual Cell Biology ) AND ( Genotype ) 7

C_query_raw: Genotype Thu Jul 26 00:56:37 2012

C: Genotype 286384

A: pubmed_query_A 361

AC: ( Virtual Cell Biology ) AND ( Genotype ) 7

C query = Genotype started Thu Jul 26 00:56:38 2012
C query resulted in 50000 titles
A AND C query resulted in 7 titles
2154 B-terms ready on Thu Jul 26 00:57:49 2012

Sem_filter:
Genes & Molecular Sequences, and Gene & Protein Names
257 B-terms left after filter executed Thu Jul 26 01:08:42 2012

B-list on Thu Jul 26 01:09:18 2012
1 estrogen receptor alpha
2 exon
3 jak2
4 akt
5 stat3
6 human genome
7 fdg
8 transcription factor
9 ppargamma
10 gene arabidopsis
11 lip
12 estrogen receptor
13 growth factor gene
14 cpg
15 genome project
16 vegfr-2
17 transposable element
18 myc
19 genome scan
20 inflammatory bowel disease
21 p53
22 rna polymerase
23 phospholamban
24 egfr
25 factor gene
26 androgen receptor
27 differentially expressed gene
28 c kit
29 g quadruplex
30 mhc
31 hla
32 aryl hydrocarbon receptor
33 pde5
34 il-8
35 related gene
36 c myc
37 arp2
38 peroxisome
39 epidermal growth factor
40 fprl1
41 isoform
42 c fos
43 nf kappab
44 methyltransferase
45 chaperone
46 abcg1
47 analysis gene
48 htra
49 gene associated
50 il-8 gene
51 dna binding protein
52 serial analysis gene
53 pkb
54 killer
55 superoxide dismutase
56 genomic
57 alcohol dehydrogenase
58 missense mutation exon
59 cgh
60 acetyltransferase
61 prostate cancer
62 gnrh
63 shp-2
64 clone
65 ask1
66 glucose-6-phosphate dehydrogenase
67 cd44
68 eppin
69 oncogene
70 polymerase
71 genome
72 aurora a
73 cd2
74 g protein
75 class i
76 rna
77 polycystic kidney disease
78 choline acetyltransferase
79 stat

 

研究实例:

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

 

Start A-Literature C-Literature B-list Filter Literature
AB literature

B-term

BC literature

Virtual Cell Biology estrogen receptor alpha Genotype
1: Anacardic acid inhibits estrogen receptor alpha-DNA binding and reduces target gene transcription and breast cancer cell proliferation. 2010
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1: Failure to detect significant association betweenestrogen receptor-alpha gene polymorphisms and endometriosis in Japanese women. 2012
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2: Estrogen receptors alpha (rs2234693 and rs9340799), and beta (rs4986938 and rs1256049) genes polymorphism in prostate cancer: Evidence for association with risk and histopathological tumor characteristics in Iranian men. 2012
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3: Association of estrogen receptor alpha gene polymorphisms and risk of fracture. 2012
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4: Association between the polymorphism ofestrogen receptor alpha and coronary artery disease in a Chinese population. 2012
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5: Genetic polymorphisms in the estrogen receptor-alpha gene and the risk of endometrial cancer: a meta-analysis. 2012
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6: Estrogen receptor alpha modulates toll-like receptor signaling in murine lupus. 2012
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7: Association of estrogen receptor alpha gene PvuII and XbaI polymorphisms with non-small cell lung cancer. 2012
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8: Association of estrogen receptor alpha(ERalpha) gene polymorphisms with endometrial thickness and lipid profile in women with breast cancer treated with aromatase inhibitors. 2012
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9: [Expression and significance of estrogen receptor alpha gene polymorphisms in blood and villi of missed abortion]. 2012
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10: Full length TrkB potentiates estrogen receptor alpha mediated transcription suggesting convergence of susceptibility pathways in schizophrenia. 2011
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