Publications by authors named "Jeremy Leipzig"

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Prequalification of genome-based newborn screening for severe childhood genetic diseases through federated training based on purifying hyperselection.
Stephen F Kingsmore, Meredith Wright, Laurie D Smith, Yupu Liang, William R Mowrey, Jeremy Leipzig

Am J Hum Genet· December 2024

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Genome-based newborn screening for severe childhood genetic diseases has high positive predictive value and sensitivity in a NICU pilot trial.
Stephen F Kingsmore, Meredith Wright, Lauren Olsen, Brandan Schultz, Liana Protopsaltis, Jeremy Leipzig

Am J Hum Genet· December 2024

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The role of metadata in reproducible computational research.
Jeremy Leipzig, Daniel Nüst, Charles Tapley Hoyt, Karthik Ram, Jane Greenberg

Patterns (N Y)· September 2021

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A comparison of survival analysis methods for cancer gene expression RNA-Sequencing data.
Pichai Raman, Samuel Zimmerman, Komal S Rathi, Laurence de Torrenté, Mahdi Sarmady, Jeremy Leipzig

Cancer Genet· June 2019

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Mitochondrial DNA Variation Dictates Expressivity and Progression of Nuclear DNA Mutations Causing Cardiomyopathy.
Meagan J McManus, Martin Picard, Hsiao-Wen Chen, Hans J De Haas, Prasanth Potluri, Jeremy Leipzig

Cell Metab· January 2019

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Predicting the pathogenicity of novel variants in mitochondrial tRNA with MitoTIP.
Sanjay Sonney, Jeremy Leipzig, Marie T Lott, Shiping Zhang, Vincent Procaccio

PLoS Comput Biol· December 2017

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Association Between Mitochondrial DNA Haplogroup Variation and Autism Spectrum Disorders.
Dimitra Chalkia, Larry N Singh, Jeremy Leipzig, Maria Lvova, Olga Derbeneva

JAMA Psychiatry· November 2017

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A review of bioinformatic pipeline frameworks.
Jeremy Leipzig

Brief Bioinform· May 2017

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Mitochondrial energy deficiency leads to hyperproliferation of skeletal muscle mitochondria and enhanced insulin sensitivity.
Ryan M Morrow, Martin Picard, Olga Derbeneva, Jeremy Leipzig, Meagan J McManus

Proc Natl Acad Sci U S A· March 2017

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MSeqDR: A Centralized Knowledge Repository and Bioinformatics Web Resource to Facilitate Genomic Investigations in Mitochondrial Disease.
Lishuang Shen, Maria Angela Diroma, Michael Gonzalez, Daniel Navarro-Gomez, Jeremy Leipzig

Hum Mutat· June 2016

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Peripheral Blood Mitochondrial DNA as a Biomarker of Cerebral Mitochondrial Dysfunction following Traumatic Brain Injury in a Porcine Model.
Todd J Kilbaugh, Maria Lvova, Michael Karlsson, Zhe Zhang, Jeremy Leipzig

PLoS One· March 2016

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Phy-Mer: a novel alignment-free and reference-independent mitochondrial haplogroup classifier.
Daniel Navarro-Gomez, Jeremy Leipzig, Lishuang Shen, Marie Lott, Alphons P M Stassen

Bioinformatics· April 2015

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Mitochondrial Disease Sequence Data Resource (MSeqDR): a global grass-roots consortium to facilitate deposition, curation, annotation, and integrated analysis of genomic data for the mitochondrial disease clinical and research communities.
Marni J Falk, Lishuang Shen, Michael Gonzalez, Jeremy Leipzig, Marie T Lott

Mol Genet Metab· March 2015

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Increased frequency of de novo copy number variants in congenital heart disease by integrative analysis of single nucleotide polymorphism array and exome sequence data.
Joseph T Glessner, Alexander G Bick, Kaoru Ito, Jason Homsy, Laura Rodriguez-Murillo, Jeremy Leipzig

Circ Res· October 2014

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Efficient digest of high-throughput sequencing data in a reproducible report.
Zhe Zhang, Jeremy Leipzig, Ariella Sasson, Angela M Yu, Juan C Perin

BMC Bioinformatics· May 2014

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mtDNA Variation and Analysis Using Mitomap and Mitomaster.
Marie T Lott, Jeremy N Leipzig, Olga Derbeneva, H Michael Xie, Dimitra Chalkia

Curr Protoc Bioinformatics· December 2013

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De novo mutations in histone-modifying genes in congenital heart disease.
Samir Zaidi, Murim Choi, Hiroko Wakimoto, Lijiang Ma, Jianming Jiang, Jeremy Leipzig

Nature· June 2013

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A next-generation sequencing approach to study the transcriptomic changes during the differentiation of physarum at the single-cell level.
Israel Barrantes, Jeremy Leipzig, Wolfgang Marwan

Gene Regul Syst Bio· October 2012

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Genome-wide analysis of interferon regulatory factor I binding in primary human monocytes.
Lihua Shi, Juan C Perin, Jeremy Leipzig, Zhe Zhang, Kathleen E Sullivan

Gene· November 2011

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DNA bar coding and pyrosequencing to analyze adverse events in therapeutic gene transfer.
Gary P Wang, Alexandrine Garrigue, Angela Ciuffi, Keshet Ronen, Jeremy Leipzig

Nucleic Acids Res· May 2008

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HTLV-1 integration into transcriptionally active genomic regions is associated with proviral expression and with HAM/TSP.
Kiran N Meekings, Jeremy Leipzig, Frederic D Bushman, Graham P Taylor, Charles R M Bangham

PLoS Pathog· March 2008

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HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications.
Gary P Wang, Angela Ciuffi, Jeremy Leipzig, Charles C Berry, Frederic D Bushman

Genome Res· August 2007

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DNA bar coding and pyrosequencing to identify rare HIV drug resistance mutations.
Christian Hoffmann, Nana Minkah, Jeremy Leipzig, Gary Wang, Max Q Arens

Nucleic Acids Res· August 2007

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Selection of target sites for mobile DNA integration in the human genome.
Charles Berry, Sridhar Hannenhalli, Jeremy Leipzig, Frederic D Bushman

PLoS Comput Biol· November 2006

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Retroviral DNA integration: viral and cellular determinants of target-site selection.
Mary K Lewinski, Masahiro Yamashita, Michael Emerman, Angela Ciuffi, Heather Marshall, Jeremy Leipzig

PLoS Pathog· June 2006

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