Brown Lab

Lab Journal Club

7/25/2014: Gaugler T et al. Most genetic risk for autism resides with common variation. Nat Genet. 2014 Jul 20. doi: 10.1038/ng.3039.
Article | Background: Lynch & Walsh, Chapter 7

7/18/2014: Siddle KJ et al. A genomic portrait of the genetic architecture and regulatory impact of microRNA expression in response to infection. Genome Res. 2014 May;24(5):850-9. doi: 10.1101/gr.161471.113. Epub 2014 Jan 30.bi
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7/7/2014: Iwasaki M and Paszkowski J. Identification of genes preventing transgenerational transmission of stress-induced epigenetic states. Proc Natl Acad Sci U S A. 2014 Jun 10;111(23):8547-52. doi: 10.1073/pnas.1402275111.
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6/27/2014: Banovich NE et al. Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels. doi: http://dx.doi.org/10.1101/006171.
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6/23/2014: Genovese P et al. Targeted genome editing in human repopulating haematopoietic stem cells. Nature. 2014 Jun 12;510(7504):235-40. doi: 10.1038/nature13420.
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6/9/2014: Kvon EZ et al. Genome-scale functional characterization of Drosophila developmental enhancers in vivo. Nature. 2014 Jun 1. doi: 10.1038/nature13395.
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6/4/2014: Kukurba KR et al. Allelic Expression of Deleterious Protein-Coding Variants across Human Tissues. PLoS Genet. 2014 May 1; 10(5);e1004304. doi: 10.1371/journal.pgen.1004304.
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5/23/2014: Letourneau A et al. Domains of genome-wide gene expression dysregulation in Down’s syndrome. Nature. 2014 Apr 17;508(7496):345-50. doi: 10.1038/nature13200.
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5/2/2014: Heyne HO et al. Genetic Influences on Brain Gene Expression in Rats Selected for Tameness and Aggression. arXiv.org > q-bio > arXiv:1404.3655
Article | Haldane's Sieve

4/25/2014: Wright FA. Heritability and genomics of gene expression in peripheral blood Nat Genet. 2014 May;46(5):430-7. doi: 10.1038/ng.2951. Epub 2014 Apr 13.
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4/11/2014: Andersson R et al. An atlas of active enhancers across human cell types and tissues. Nature. 2014 Mar 27;507(7493):455-61. doi: 10.1038/nature12787.
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4/4/2014: Lee JH et al. Highly Multiplexed Subcellular RNA Sequencing in Situ. Science. 2014 Mar 21;343(6177):1360-3. doi: 10.1126/science.1250212. Epub 2014 Feb 27.
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3/10/2014: Arbiza L et al. Genome-wide inference of natural selection on human transcription factor binding sites. Nat Genet. 2013 Jul;45(7):723-9. doi: 10.1038/ng.2658. Epub 2013 Jun 9.
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2/28/2014: Kulzer JR et al. A Common Functional Regulatory Variant at a Type 2 Diabetes Locus Upregulates ARAP1 Expression in the Pancreatic Beta Cell. Am J Hum Genet. 2014 Feb 6;94(2):186-97. doi: 10.1016/j.ajhg.2013.12.011.
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2/19/2014: Kircher M et al. A general framework for estimating the relative pathogenicity of human genetic variants. Nature Genetics. 2014 doi:10.1038/ng.2892. PMID: 24487276.
Article | Background/Related: GWAVA | GERP | Needles in Stacks of Needles

2/10/2014: Corradin O et al. Combinatorial effects of multiple enhancer variants in linkage disequilibrium dictate levels of gene expression to confer susceptibility to common traits. Genome Res. 2014 Jan;24(1):1-13. doi: 10.1101/gr.164079.113. Epub 2013 Nov 6. PMID: 24196873.
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2/3/2014: Kim TH et al. Broadly permissive intestinal chromatin underlies lateral inhibition and cell plasticity. Nature. 2014 Jan 12. doi: 10.1038/nature12903. PMID: 24413398.
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1/24/2014: Ostuni R et al. Latent Enhancers Activated by Stimulation in Differentiated Cells. Cell. 2013 Jan 17;152(1-2):157-71. doi: 10.1016/j.cell.2012.12.018. PMID: 23332752.
Article | Background: chromHMM

1/17/2014: Pasquali L et al. Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants. Nature Genetics. 2014 Feb;46(2):136-43. doi: 10.1038/ng.2870. Epub 2014 Jan 12. PMID: 24413736.
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