Publications by authors named "James Cavalcoli"

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Ecological and genetic interactions between cyanobacteria and viruses in a low-oxygen mat community inferred through metagenomics and metatranscriptomics.
Alexander A Voorhies, Sarah D Eisenlord, Daniel N Marcus, Melissa B Duhaime, Bopaiah A Biddanda, James D Cavalcoli

Environ Microbiol· February 2016

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Novel bioinformatics method for identification of genome-wide non-canonical spliced regions using RNA-Seq data.
Yongsheng Bai, Justin Hassler, Ahdad Ziyar, Philip Li, Zachary Wright, James D Cavalcoli

PLoS One· October 2015

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The IRE1α/XBP1s Pathway Is Essential for the Glucose Response and Protection of β Cells.
Justin R Hassler, Donalyn L Scheuner, Shiyu Wang, Jaeseok Han, Vamsi K Kodali, James Cavalcoli

PLoS Biol· October 2015

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LINE-1 Mediated Insertion into Poc1a (Protein of Centriole 1 A) Causes Growth Insufficiency and Male Infertility in Mice.
Krista A Geister, Michelle L Brinkmeier, Leonard Y Cheung, Jennifer Wendt, Melissa J Oatley, James D Cavalcoli

PLoS Genet· October 2015

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Genome-Wide Identification of Klebsiella pneumoniae Fitness Genes during Lung Infection.
Michael A Bachman, Paul Breen, Valerie Deornellas, Qiao Mu, Lili Zhao, James D Cavalcoli

mBio· June 2015

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Alternative splicing of human NT5E in cirrhosis and hepatocellular carcinoma produces a negative regulator of ecto-5'-nucleotidase (CD73).
Natasha T Snider, Peter J Altshuler, Shanshan Wan, Theodore H Welling, James Cavalcoli

Mol Biol Cell· December 2014

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CD1d-unrestricted NKT cells are endowed with a hybrid function far superior than that of iNKT cells.
Alexander R Farr, Weisheng Wu, Bongkum Choi, James D Cavalcoli, Yasmina Laouar

Proc Natl Acad Sci U S A· September 2014

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Complete Genome Sequence of Klebsiella pneumoniae Strain ATCC 43816 KPPR1, a Rifampin-Resistant Mutant Commonly Used in Animal, Genetic, and Molecular Biology Studies.
Christopher A Broberg, Weisheng Wu, James D Cavalcoli, Virginia L Miller, Michael A Bachman

Genome Announc· September 2014

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Regulation of the human endogenous retrovirus K (HML-2) transcriptome by the HIV-1 Tat protein.
Marta J Gonzalez-Hernandez, James D Cavalcoli, Maureen A Sartor, Rafael Contreras-Galindo, Fan Meng

J Virol· August 2014

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H2A.B facilitates transcription elongation at methylated CpG loci.
Yibin Chen, Qiang Chen, Richard C McEachin, James D Cavalcoli, Xiaochun Yu

Genome Res· April 2014

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A bioinformatics approach reveals novel interactions of the OVOL transcription factors in the regulation of epithelial - mesenchymal cell reprogramming and cancer progression.
Hernan Roca, Manjusha Pande, Jeffrey S Huo, James Hernandez, James D Cavalcoli

BMC Syst Biol· March 2014

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SNPAAMapper: An efficient genome-wide SNP variant analysis pipeline for next-generation sequencing data.
Yongsheng Bai, James Cavalcoli

Bioinformation· November 2013

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Community transcriptomic assembly reveals microbes that contribute to deep-sea carbon and nitrogen cycling.
Brett J Baker, Cody S Sheik, Chris A Taylor, Sunit Jain, Ashwini Bhasi, James D Cavalcoli

ISME J· October 2013

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Next-generation sequencing identifies the Danforth's short tail mouse mutation as a retrotransposon insertion affecting Ptf1a expression.
Christopher N Vlangos, Amanda N Siuniak, Dan Robinson, Arul M Chinnaiyan, Robert H Lyons, James D Cavalcoli

PLoS Genet· June 2013

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Identification of cross-species shared transcriptional networks of diabetic nephropathy in human and mouse glomeruli.
Jeffrey B Hodgin, Viji Nair, Hongyu Zhang, Ann Randolph, Raymond C Harris, James D Cavalcoli

Diabetes· January 2013

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The NIH National Center for Integrative Biomedical Informatics (NCIBI).
Brian D Athey, James D Cavalcoli, H V Jagadish, Gilbert S Omenn, Barbara Mirel

J Am Med Inform Assoc· May 2012

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Disruption of RAB40AL function leads to Martin--Probst syndrome, a rare X-linked multisystem neurodevelopmental human disorder.
Jirair Krikor Bedoyan, Valerie M Schaibley, Weiping Peng, Yongsheng Bai, Kajari Mondal, James D Cavalcoli

J Med Genet· May 2012

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Decade-long bacterial community dynamics in cystic fibrosis airways.
Jiangchao Zhao, Patrick D Schloss, Linda M Kalikin, Lisa A Carmody, Bridget K Foster, James D Cavalcoli

Proc Natl Acad Sci U S A· April 2012

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Convergence of genetic influences in comorbidity.
Richard C McEachin, Keerthi S Sannareddy, James D Cavalcoli, Alla Karnovsky, Jacqueline M Vink

BMC Bioinformatics· March 2012

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Current status and future perspectives for sequencing livestock genomes.
Yongsheng Bai, Maureen Sartor, James Cavalcoli

J Anim Sci Biotechnol· March 2012

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Candidate exome capture identifies mutation of SDCCAG8 as the cause of a retinal-renal ciliopathy.
Edgar A Otto, Toby W Hurd, Rannar Airik, Moumita Chaki, Weibin Zhou, James D Cavalcoli

Nat Genet· October 2010

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Genome-based characterization of two prenylation steps in the assembly of the stephacidin and notoamide anticancer agents in a marine-derived Aspergillus sp.
Yousong Ding, Jeffrey R de Wet, James Cavalcoli, Shengying Li, Thomas J Greshock

J Am Chem Soc· September 2010

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Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks.
Jing Gao, V Glenn Tarcea, Alla Karnovsky, Barbara R Mirel, Terry E Weymouth, James D Cavalcoli

Bioinformatics· April 2010

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Modeling complex genetic and environmental influences on comorbid bipolar disorder with tobacco use disorder.
Richard C McEachin, Nancy L Saccone, Scott F Saccone, Yelena D Kleyman-Smith, Tiara Kar, James D Cavalcoli

BMC Med Genet· January 2010

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