Publications

Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al..  2019.  Author Correction: Best practices for benchmarking germline small-variant calls in human genomes.. Nat Biotechnol.

Krusche P, Trigg L, Boutros PC, Mason CE, De La Vega FM, Moore BL, Gonzalez-Porta M, Eberle MA, Tezak Z, Lababidi S et al..  2019.  Best practices for benchmarking germline small-variant calls in human genomes.. Nat Biotechnol.

McIntyre ABR, Ounit R, Afshinnekoo E, Prill RJ, Hénaff E, Alexander N, Minot SS, Danko D, Foox J, Ahsanuddin S et al..  2019.  Correction to: Comprehensive benchmarking and ensemble approaches for metagenomic classifiers.. Genome Biol. 20(1):72.

Goldman SL, Hassan C, Khunte M, Soldatenko A, Jong Y, Afshinnekoo E, Mason CE.  2019.  Epigenetic Modifications in Acute Myeloid Leukemia: Prognosis, Treatment, and Heterogeneity.. Front Genet. 10:133.

Goldman SL, MacKay M, Afshinnekoo E, Melnick AM, Wu S, Mason CE.  2019.  The Impact of Heterogeneity on Single-Cell Sequencing.. Front Genet. 10:8.

Agirre X, Meydan C, Jiang Y, Garate L, Doane AS, Li Z, Verma A, Paiva B, Martín-Subero JI, Elemento O et al..  2019.  Long non-coding RNAs discriminate the stages and gene regulatory states of human humoral immune response.. Nat Commun. 10(1):821.

Garrett-Bakelman FE, Darshi M, Green SJ, Gur RC, Lin L, Macias BR, McKenna MJ, Meydan C, Mishra T, Nasrini J et al..  2019.  The NASA Twins Study: A multidimensional analysis of a year-long human spaceflight.. Science. 364(6436)

McIntyre ABR, Alexander N, Grigorev K, Bezdan D, Sichtig H, Chiu CY, Mason CE.  2019.  Single-molecule sequencing detection of N6-methyladenine in microbial reference materials.. Nat Commun. 10(1):579.

Jain D, M Puno R, Meydan C, Lailler N, Mason CE, Lima CD, Anderson KV, Keeney S.  2018.  ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2.. Elife. 7

Imam H, Khan M, Gokhale NS, McIntyre ABR, Kim G-W, Jang JYoung, Kim S-J, Mason CE, Horner SM, Siddiqui A.  2018.  -methyladenosine modification of hepatitis B virus RNA differentially regulates the viral life cycle.. Proc Natl Acad Sci U S A.

Shaaban H, Westfall DA, Mohammad R, Danko D, Bezdan D, Afshinnekoo E, Segata N, Mason CE.  2018.  The Microbe Directory: An annotated, searchable inventory of microbes' characteristics.. Gates Open Res. 2:3.

Singh NK, Bezdan D, Sielaff AChecinska, Wheeler K, Mason CE, Venkateswaran K.  2018.  Multi-drug resistant Enterobacter bugandensis species isolated from the International Space Station and comparative genomic analyses with human pathogenic strains.. BMC Microbiol. 18(1):175.

Shamarina D, Stoyantcheva I, Mason CE, Bibby K, Elhaik E.  2017.  Communicating the promise, risks, and ethics of large-scale, open space microbiome and metagenome research.. Microbiome. 5(1):132.

McIntyre ABR, Ounit R, Afshinnekoo E, Prill RJ, Hénaff E, Alexander N, Minot SS, Danko D, Foox J, Ahsanuddin S et al..  2017.  Comprehensive benchmarking and ensemble approaches for metagenomic classifiers.. Genome Biol. 18(1):182.

Backlund PS, Urbanski HF, Doll MA, Hein DW, Bozinoski M, Mason CE, Coon SL, Klein DC.  2017.  Daily Rhythm in Plasma N-acetyltryptamine.. J Biol Rhythms. 32(3):195-211.

M Ross E, Mason CE, Finnell RH.  2017.  Genomic approaches to the assessment of human spina bifida risk.. Birth Defects Res. 109(2):120-128.

Tessler M, Neumann JS, Afshinnekoo E, Pineda M, Hersch R, Velho LFelipe M, Segovia BT, Lansac-Toha FA, Lemke M, DeSalle R et al..  2017.  Large-scale differences in microbial biodiversity discovery between 16S amplicon and shotgun sequencing.. Sci Rep. 7(1):6589.

O'Hara NB, Reed HJ, Afshinnekoo E, Harvin D, Caplan N, Rosen G, Frye B, Woloszynek S, Ounit R, Levy S et al..  2017.  Metagenomic characterization of ambulances across the USA.. Microbiome. 5(1):125.

Vu LP, Pickering BF, Cheng Y, Zaccara S, Nguyen D, Minuesa G, Chou T, Chow A, Saletore Y, MacKay M et al..  2017.  The N6-methyladenosine (m6A)-forming enzyme METTL3 controls myeloid differentiation of normal hematopoietic and leukemia cells.. Nat Med. 23(11):1369-1376.

Castro-Wallace SL, Chiu CY, John KK, Stahl SE, Rubins KH, McIntyre ABR, Dworkin JP, Lupisella ML, Smith DJ, Botkin DJ et al..  2017.  Nanopore DNA Sequencing and Genome Assembly on the International Space Station.. Sci Rep. 7(1):18022.

Jain D, Meydan C, Lange J, Bouuaert CClaeys, Lailler N, Mason CE, Anderson KV, Keeney S.  2017.  rahu is a mutant allele of Dnmt3c, encoding a DNA methyltransferase homolog required for meiosis and transposon repression in the mouse male germline.. PLoS Genet. 13(8):e1006964.

Maduro V, Pusey BN, Cherukuri PF, Atkins P, Souich Cdu, Rupps R, Limbos M, Adams DR, Bhatt SS, Eydoux P et al..  2016.  Complex translocation disrupting TCF4 and altering TCF4 isoform expression segregates as mild autosomal dominant intellectual disability.. Orphanet J Rare Dis. 11(1):62.

Li S, Garrett-Bakelman FE, Chung SS, Sanders MA, Hricik T, Rapaport F, Patel J, Dillon R, Vijay P, Brown AL et al..  2016.  Distinct evolution and dynamics of epigenetic and genetic heterogeneity in acute myeloid leukemia.. Nat Med. 22(7):792-9.

Lichinchi G, Gao S, Saletore Y, Gonzalez GMichelle, Bansal V, Wang Y, Mason CE, Rana TM.  2016.  Dynamics of the human and viral m(6)A RNA methylomes during HIV-1 infection of T cells.. Nat Microbiol. 1:16011.

Zook JM, Catoe D, McDaniel J, Vang L, Spies N, Sidow A, Weng Z, Liu Y, Mason CE, Alexander N et al..  2016.  Extensive sequencing of seven human genomes to characterize benchmark reference materials.. Sci Data. 3:160025.