What's new for 'JKB_daily1' in PubMed

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Sender's message: Sepsis or genomics or altitude: JKB_daily1

Sent on Friday, 2012 March 02
Search: (sepsis[MeSH Terms] OR septic shock[MeSH Terms] OR altitude[MeSH Terms] OR genomics[MeSH Terms] OR genetics[MeSH Terms] OR retrotransposons[MeSH Terms] OR macrophage[MeSH Terms]) AND ("2009/8/8"[Publication Date] : "3000"[Publication Date]) AND (("Science"[Journal] OR "Nature"[Journal] OR "The New England journal of medicine"[Journal] OR "Lancet"[Journal] OR "Nature genetics"[Journal] OR "Nature medicine"[Journal]) OR (Hume DA[Author] OR Baillie JK[Author] OR Faulkner, Geoffrey J[Author]))

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PubMed Results

Items 1 - 4 of 4

1.	N Engl J Med. 2012 Feb 23;366(8):733-43. Genomics, intellectual disability, and autism. Mefford HC, Batshaw ML, Hoffman EP. Source Department of Pediatrics, Division of Genetic Medicine, University of Washington, Seattle, WA 98195, USA. hmefford@u.washington.edu Comment in N Engl J Med. 2012 Feb 23;366(8):757-9.
	PMID: 22356326 [PubMed - indexed for MEDLINE]
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2.	Nat Genet. 2011 Dec 27;44(1):6-7. doi: 10.1038/ng.1044. Improved imputation of common and uncommon SNPs with a new reference set. Wang Z, Jacobs KB, Yeager M, Hutchinson A, Sampson J, Chatterjee N, Albanes D, Berndt SI, Chung CC, Diver WR, Gapstur SM, Teras LR, Haiman CA, Henderson BE, Stram D, Deng X, Hsing AW, Virtamo J, Eberle MA, Stone JL, Purdue MP, Taylor P, Tucker M, Chanock SJ.PMCID: PMC3276401 Free PMC Article
	PMID: 22200770 [PubMed - indexed for MEDLINE]
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3.	Nature. 2011 Dec 14;480(7378):490-5. doi: 10.1038/nature10716. DNA-binding factors shape the mouse methylome at distal regulatory regions. Stadler MB, Murr R, Burger L, Ivanek R, Lienert F, Schöler A, Wirbelauer C, Oakeley EJ, Gaidatzis D, Tiwari VK, Schübeler D. Source Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland. Comment in Nat Rev Genet. 2011 Feb;13(2):75. Abstract Methylation of cytosines is an essential epigenetic modification in mammalian genomes, yet the rules that govern methylation patterns remain largely elusive. To gain insights into this process, we generated base-pair-resolution mouse methylomes in stem cells and neuronal progenitors. Advanced quantitative analysis identified low-methylated regions (LMRs) with an average methylation of 30%. These represent CpG-poor distal regulatory regions as evidenced by location, DNase I hypersensitivity, presence of enhancer chromatin marks and enhancer activity in reporter assays. LMRs are occupied by DNA-binding factors and their binding is necessary and sufficient to create LMRs. A comparison of neuronal and stem-cell methylomes confirms this dependency, as cell-type-specific LMRs are occupied by cell-type-specific transcription factors. This study provides methylome references for the mouse and shows that DNA-binding factors locally influence DNA methylation, enabling the identification of active regulatory regions.
	PMID: 22170606 [PubMed - indexed for MEDLINE]
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4.	Nat Genet. 2011 Dec 4;44(1):32-9. doi: 10.1038/ng.1018. Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm. Huang X, Zhao Y, Wei X, Li C, Wang A, Zhao Q, Li W, Guo Y, Deng L, Zhu C, Fan D, Lu Y, Weng Q, Liu K, Zhou T, Jing Y, Si L, Dong G, Huang T, Lu T, Feng Q, Qian Q, Li J, Han B. Source National Center for Gene Research, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China. Abstract A high-density haplotype map recently enabled a genome-wide association study (GWAS) in a population of indica subspecies of Chinese rice landraces. Here we extend this methodology to a larger and more diverse sample of 950 worldwide rice varieties, including the Oryza sativa indica and Oryza sativa japonica subspecies, to perform an additional GWAS. We identified a total of 32 new loci associated with flowering time and with ten grain-related traits, indicating that the larger sample increased the power to detect trait-associated variants using GWAS. To characterize various alleles and complex genetic variation, we developed an analytical framework for haplotype-based de novo assembly of the low-coverage sequencing data in rice. We identified candidate genes for 18 associated loci through detailed annotation. This study shows that the integrated approach of sequence-based GWAS and functional genome annotation has the potential to match complex traits to their causal polymorphisms in rice.
	PMID: 22138690 [PubMed - indexed for MEDLINE]
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