Publications by authors named "Athma A Pai"

28Publications

Environmental influences on RNA processing: Biochemical, molecular and genetic regulators of cellular response.

Wiley Interdiscip Rev RNA 2019 01 14;10(1):e1503. Epub 2018 Sep 14.

Center for Molecular Medicine and Genetics, and Department of Obstetrics and Gynecology, Wayne State University, Detroit, Michigan.

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January 2019

Nuclear Localization of Huntingtin mRNA Is Specific to Cells of Neuronal Origin.

Cell Rep 2018 09;24(10):2553-2560.e5

RNA Therapeutics Institute, University of Massachusetts Medical School, Worcester, MA 01605, USA; Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA. Electronic address:

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September 2018

Numerous recursive sites contribute to accuracy of splicing in long introns in flies.

PLoS Genet 2018 08 27;14(8):e1007588. Epub 2018 Aug 27.

Department of Biology, Massachusetts Institute of Technology, Cambridge, United States of America.

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August 2018

Bayesian nonparametric discovery of isoforms and individual specific quantification.

Nat Commun 2018 04 27;9(1):1681. Epub 2018 Apr 27.

Department of Computer Science, Princeton University, Princeton, NJ, 08540, USA.

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April 2018

The kinetics of pre-mRNA splicing in the genome and the influence of gene architecture.

Elife 2017 12 27;6. Epub 2017 Dec 27.

Departments of Biology and Biological Engineering, Massachusetts Institute of Technology, Cambridge, United States.

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December 2017

Environmental perturbations lead to extensive directional shifts in RNA processing.

PLoS Genet 2017 Oct 12;13(10):e1006995. Epub 2017 Oct 12.

Center for Molecular Medicine and Genetics, Wayne State University, Detroit, Michigan, United States of America.

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October 2017

The genetic and mechanistic basis for variation in gene regulation.

PLoS Genet 2015 Jan 8;11(1):e1004857. Epub 2015 Jan 8.

Department of Human Genetics, University of Chicago, Chicago, Illinois, United States of America.

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January 2015

Comparative studies of gene regulatory mechanisms.

Curr Opin Genet Dev 2014 Dec 16;29:68-74. Epub 2014 Sep 16.

Department of Human Genetics, University of Chicago, United States. Electronic address:

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December 2014

RNA-seq: impact of RNA degradation on transcript quantification.

BMC Biol 2014 May 30;12:42. Epub 2014 May 30.

Department of Human Genetics, University of Chicago, 920 E 58th St, CLSC 317, Chicago, IL 60637, USA.

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May 2014

Controls of nucleosome positioning in the human genome.

PLoS Genet 2012 15;8(11):e1003036. Epub 2012 Nov 15.

Department of Human Genetics, University of Chicago, Chicago, Illinois, United States of America.

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May 2013

Dissecting the regulatory architecture of gene expression QTLs.

Genome Biol 2012 Jan 31;13(1):R7. Epub 2012 Jan 31.

Department of Human Genetics, University of Chicago, 920 E58th Street, Chicago, IL 60637, USA.

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January 2012

Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection.

Proc Natl Acad Sci U S A 2012 Jan 10;109(4):1204-9. Epub 2012 Jan 10.

Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA.

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January 2012

A genome-wide study of DNA methylation patterns and gene expression levels in multiple human and chimpanzee tissues.

PLoS Genet 2011 Feb 24;7(2):e1001316. Epub 2011 Feb 24.

Department of Human Genetics, University of Chicago, Chicago, Illinois, United States of America.

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February 2011

Dissecting the within-Africa ancestry of populations of African descent in the Americas.

PLoS One 2011 Jan 6;6(1):e14495. Epub 2011 Jan 6.

Department of Biostatistics and Epidemiology, School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.

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January 2011

Noisy splicing drives mRNA isoform diversity in human cells.

PLoS Genet 2010 Dec 9;6(12):e1001236. Epub 2010 Dec 9.

Department of Human Genetics, The University of Chicago, Chicago, Illinois, United States of America.

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December 2010

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data.

Genome Res 2011 Mar 24;21(3):447-55. Epub 2010 Nov 24.

Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA.

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March 2011

Evaluation of group genetic ancestry of populations from Philadelphia and Dakar in the context of sex-biased admixture in the Americas.

PLoS One 2009 Nov 25;4(11):e7842. Epub 2009 Nov 25.

Department of Biostatistics and Epidemiology, School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.

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November 2009

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data.

Bioinformatics 2009 Dec 6;25(24):3207-12. Epub 2009 Oct 6.

Department of Human Genetics, University of Chicago, 920 E. 58th St., CLSC 507, Chicago, IL 60637, USA.

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December 2009