Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 140

1.

The Microbe Directory: An annotated, searchable inventory of microbes' characteristics.

Shaaban H, Westfall DA, Mohammad R, Danko D, Bezdan D, Afshinnekoo E, Segata N, Mason CE.

Gates Open Res. 2018 Jan 5;2:3. doi: 10.12688/gatesopenres.12772.1.

2.

Jak1 Integrates Cytokine Sensing to Regulate Hematopoietic Stem Cell Function and Stress Hematopoiesis.

Kleppe M, Spitzer MH, Li S, Hill CE, Dong L, Papalexi E, De Groote S, Bowman RL, Keller M, Koppikar P, Rapaport FT, Teruya-Feldstein J, Gandara J, Mason CE, Nolan GP, Levine RL.

Cell Stem Cell. 2018 Feb 1;22(2):277. doi: 10.1016/j.stem.2017.12.018. No abstract available.

PMID:
29395057
3.

ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2.

Jain D, Puno MR, Meydan C, Lailler N, Mason CE, Lima CD, Anderson KV, Keeney S.

Elife. 2018 Jan 23;7. pii: e30919. doi: 10.7554/eLife.30919.

4.

Sooty mangabey genome sequence provides insight into AIDS resistance in a natural SIV host.

Palesch D, Bosinger SE, Tharp GK, Vanderford TH, Paiardini M, Chahroudi A, Johnson ZP, Kirchhoff F, Hahn BH, Norgren RB, Patel NB, Sodora DL, Dawoud RA, Stewart CB, Seepo SM, Harris RA, Liu Y, Raveendran M, Han Y, English A, Thomas GWC, Hahn MW, Pipes L, Mason CE, Muzny DM, Gibbs RA, Sauter D, Worley K, Rogers J, Silvestri G.

Nature. 2018 Jan 3;553(7686):77-81. doi: 10.1038/nature25140.

5.

Nanopore DNA Sequencing and Genome Assembly on the International Space Station.

Castro-Wallace SL, Chiu CY, John KK, Stahl SE, Rubins KH, McIntyre ABR, Dworkin JP, Lupisella ML, Smith DJ, Botkin DJ, Stephenson TA, Juul S, Turner DJ, Izquierdo F, Federman S, Stryke D, Somasekar S, Alexander N, Yu G, Mason CE, Burton AS.

Sci Rep. 2017 Dec 21;7(1):18022. doi: 10.1038/s41598-017-18364-0.

6.

Cry1 Bt Susceptibilities of Fall Armyworm (Lepidoptera: Noctuidae) Host Strains.

Ingber DA, Mason CE, Flexner L.

J Econ Entomol. 2018 Feb 9;111(1):361-368. doi: 10.1093/jee/tox311.

PMID:
29240921
7.

The international MAQC Society launches to enhance reproducibility of high-throughput technologies.

Shi L, Kusko R, Wolfinger RD, Haibe-Kains B, Fischer M, Sansone SA, Mason CE, Furlanello C, Jones WD, Ning B, Tong W.

Nat Biotechnol. 2017 Dec 8;35(12):1127-1128. doi: 10.1038/nbt.4029. No abstract available.

PMID:
29220036
8.

Communicating the promise, risks, and ethics of large-scale, open space microbiome and metagenome research.

Shamarina D, Stoyantcheva I, Mason CE, Bibby K, Elhaik E.

Microbiome. 2017 Oct 4;5(1):132. doi: 10.1186/s40168-017-0349-4.

9.

Jak1 Integrates Cytokine Sensing to Regulate Hematopoietic Stem Cell Function and Stress Hematopoiesis.

Kleppe M, Spitzer MH, Li S, Hill CE, Dong L, Papalexi E, De Groote S, Bowman RL, Keller M, Koppikar P, Rapaport FT, Teruya-Feldstein J, Gandara J, Mason CE, Nolan GP, Levine RL.

Cell Stem Cell. 2017 Oct 5;21(4):489-501.e7. doi: 10.1016/j.stem.2017.08.011. Epub 2017 Sep 28. Erratum in: Cell Stem Cell. 2018 Feb 1;22(2):277.

10.

Erratum: PGBD5 promotes site-specific oncogenic mutations in human tumors.

Henssen AG, Koche R, Zhuang J, Jiang E, Reed C, Eisenberg A, Still E, MacArthur IC, Rodríguez-Fos E, Gonzalez S, Puiggròs M, Blackford AN, Mason CE, de Stanchina E, Gönen M, Emde AK, Shah M, Arora K, Reeves C, Socci ND, Perlman E, Antonescu CR, Roberts CWM, Steen H, Mullen E, Jackson SP, Torrents D, Weng Z, Armstrong SA, Kentsis A.

Nat Genet. 2017 Sep 27;49(10):1558. doi: 10.1038/ng1017-1558b. No abstract available.

PMID:
28951624
11.

Metagenomic characterization of ambulances across the USA.

O'Hara NB, Reed HJ, Afshinnekoo E, Harvin D, Caplan N, Rosen G, Frye B, Woloszynek S, Ounit R, Levy S, Butler E, Mason CE.

Microbiome. 2017 Sep 22;5(1):125. doi: 10.1186/s40168-017-0339-6.

12.

Comprehensive benchmarking and ensemble approaches for metagenomic classifiers.

McIntyre ABR, Ounit R, Afshinnekoo E, Prill RJ, Hénaff E, Alexander N, Minot SS, Danko D, Foox J, Ahsanuddin S, Tighe S, Hasan NA, Subramanian P, Moffat K, Levy S, Lonardi S, Greenfield N, Colwell RR, Rosen GL, Mason CE.

Genome Biol. 2017 Sep 21;18(1):182. doi: 10.1186/s13059-017-1299-7.

13.

The N6-methyladenosine (m6A)-forming enzyme METTL3 controls myeloid differentiation of normal hematopoietic and leukemia cells.

Vu LP, Pickering BF, Cheng Y, Zaccara S, Nguyen D, Minuesa G, Chou T, Chow A, Saletore Y, MacKay M, Schulman J, Famulare C, Patel M, Klimek VM, Garrett-Bakelman FE, Melnick A, Carroll M, Mason CE, Jaffrey SR, Kharas MG.

Nat Med. 2017 Nov;23(11):1369-1376. doi: 10.1038/nm.4416. Epub 2017 Sep 18.

14.

rahu is a mutant allele of Dnmt3c, encoding a DNA methyltransferase homolog required for meiosis and transposon repression in the mouse male germline.

Jain D, Meydan C, Lange J, Claeys Bouuaert C, Lailler N, Mason CE, Anderson KV, Keeney S.

PLoS Genet. 2017 Aug 30;13(8):e1006964. doi: 10.1371/journal.pgen.1006964. eCollection 2017 Aug.

15.

Chromosome End Repair and Genome Stability in Plasmodium falciparum.

Calhoun SF, Reed J, Alexander N, Mason CE, Deitsch KW, Kirkman LA.

MBio. 2017 Aug 8;8(4). pii: e00547-17. doi: 10.1128/mBio.00547-17.

16.

Large-scale differences in microbial biodiversity discovery between 16S amplicon and shotgun sequencing.

Tessler M, Neumann JS, Afshinnekoo E, Pineda M, Hersch R, Velho LFM, Segovia BT, Lansac-Toha FA, Lemke M, DeSalle R, Mason CE, Brugler MR.

Sci Rep. 2017 Jul 31;7(1):6589. doi: 10.1038/s41598-017-06665-3.

17.

Nanopore sequencing in microgravity.

McIntyre ABR, Rizzardi L, Yu AM, Alexander N, Rosen GL, Botkin DJ, Stahl SE, John KK, Castro-Wallace SL, McGrath K, Burton AS, Feinberg AP, Mason CE.

NPJ Microgravity. 2016 Oct 20;2:16035. doi: 10.1038/npjmgrav.2016.35. eCollection 2016.

18.

Genetic and epigenetic heterogeneity and the impact on cancer relapse.

Hassan C, Afshinnekoo E, Li S, Wu S, Mason CE.

Exp Hematol. 2017 Oct;54:26-30. doi: 10.1016/j.exphem.2017.07.002. Epub 2017 Jul 10. Review.

PMID:
28705639
19.

PGBD5 promotes site-specific oncogenic mutations in human tumors.

Henssen AG, Koche R, Zhuang J, Jiang E, Reed C, Eisenberg A, Still E, MacArthur IC, Rodríguez-Fos E, Gonzalez S, Puiggròs M, Blackford AN, Mason CE, de Stanchina E, Gönen M, Emde AK, Shah M, Arora K, Reeves C, Socci ND, Perlman E, Antonescu CR, Roberts CWM, Steen H, Mullen E, Jackson SP, Torrents D, Weng Z, Armstrong SA, Kentsis A.

Nat Genet. 2017 Jul;49(7):1005-1014. doi: 10.1038/ng.3866. Epub 2017 May 15. Erratum in: Nat Genet. 2017 Sep 27;49(10 ):1558.

20.

Charting the unknown epitranscriptome.

Novoa EM, Mason CE, Mattick JS.

Nat Rev Mol Cell Biol. 2017 Jun;18(6):339-340. doi: 10.1038/nrm.2017.49. Epub 2017 May 10.

PMID:
28488699
21.

Daily Rhythm in Plasma N-acetyltryptamine.

Backlund PS, Urbanski HF, Doll MA, Hein DW, Bozinoski M, Mason CE, Coon SL, Klein DC.

J Biol Rhythms. 2017 Jun;32(3):195-211. doi: 10.1177/0748730417700458. Epub 2017 May 3.

22.

Focus on Metagenomics.

Mason CE, Tighe S.

J Biomol Tech. 2017 Apr;28(1):1. doi: 10.7171/jbt.17-2801-010. Epub 2017 Mar 29. No abstract available.

23.

Assessment of REPLI-g Multiple Displacement Whole Genome Amplification (WGA) Techniques for Metagenomic Applications.

Ahsanuddin S, Afshinnekoo E, Gandara J, Hakyemezoğlu M, Bezdan D, Minot S, Greenfield N, Mason CE.

J Biomol Tech. 2017 Apr;28(1):46-55. doi: 10.7171/jbt.17-2801-008. Epub 2017 Mar 21. Erratum in: J Biomol Tech. 2017 Jul;28(2):96.

24.

Precision Metagenomics: Rapid Metagenomic Analyses for Infectious Disease Diagnostics and Public Health Surveillance.

Afshinnekoo E, Chou C, Alexander N, Ahsanuddin S, Schuetz AN, Mason CE.

J Biomol Tech. 2017 Apr;28(1):40-45. doi: 10.7171/jbt.17-2801-007. Epub 2017 Mar 21. Erratum in: J Biomol Tech. 2017 Jul;28(2):95.

25.

International Standards for Genomes, Transcriptomes, and Metagenomes.

Mason CE, Afshinnekoo E, Tighe S, Wu S, Levy S.

J Biomol Tech. 2017 Apr;28(1):8-18. doi: 10.7171/jbt.17-2801-006. Epub 2017 Mar 17. Review. Erratum in: J Biomol Tech. 2017 Jul;28(2):94.

26.

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP).

Tighe S, Afshinnekoo E, Rock TM, McGrath K, Alexander N, McIntyre A, Ahsanuddin S, Bezdan D, Green SJ, Joye S, Stewart Johnson S, Baldwin DA, Bivens N, Ajami N, Carmical JR, Herriott IC, Colwell R, Donia M, Foox J, Greenfield N, Hunter T, Hoffman J, Hyman J, Jorgensen E, Krawczyk D, Lee J, Levy S, Garcia-Reyero N, Settles M, Thomas K, Gómez F, Schriml L, Kyrpides N, Zaikova E, Penterman J, Mason CE.

J Biomol Tech. 2017 Apr;28(1):31-39. doi: 10.7171/jbt.17-2801-004. Epub 2017 Mar 10. Erratum in: J Biomol Tech. 2017 Jul;28(2):93.

27.

Survivorship of Z-Pheromone Race European Corn Borer (Lepidoptera: Crambidae) on a Range of Host Plants Varying in Defensive Chemistry.

Fisher KE, Mason CE, Flexner JL, Hough-Goldstein J, McDonald JH.

J Econ Entomol. 2017 Jun 1;110(3):978-985. doi: 10.1093/jee/tox066.

PMID:
28334330
28.

Combination Targeted Therapy to Disrupt Aberrant Oncogenic Signaling and Reverse Epigenetic Dysfunction in IDH2- and TET2-Mutant Acute Myeloid Leukemia.

Shih AH, Meydan C, Shank K, Garrett-Bakelman FE, Ward PS, Intlekofer AM, Nazir A, Stein EM, Knapp K, Glass J, Travins J, Straley K, Gliser C, Mason CE, Yen K, Thompson CB, Melnick A, Levine RL.

Cancer Discov. 2017 May;7(5):494-505. doi: 10.1158/2159-8290.CD-16-1049. Epub 2017 Feb 13.

29.

Lithium Accumulates in Neurogenic Brain Regions as Revealed by High Resolution Ion Imaging.

Zanni G, Michno W, Di Martino E, Tjärnlund-Wolf A, Pettersson J, Mason CE, Hellspong G, Blomgren K, Hanrieder J.

Sci Rep. 2017 Jan 18;7:40726. doi: 10.1038/srep40726.

30.

Epigenetic therapy in a new era of medicine: creating and integrating molecular profiles of patients.

Afshinnekoo E, Mason CE.

Ann Transl Med. 2016 Nov;4(21):436. No abstract available.

31.

Globalizing and crowdsourcing biomedical research.

Afshinnekoo E, Ahsanuddin S, Mason CE.

Br Med Bull. 2016 Dec;120(1):27-33. Epub 2016 Nov 23. Review.

PMID:
27941038
32.

Genomic approaches to the assessment of human spina bifida risk.

Ross ME, Mason CE, Finnell RH.

Birth Defects Res. 2017 Jan 30;109(2):120-128. doi: 10.1002/bdra.23592. Review.

33.

DNMT3A mutations promote anthracycline resistance in acute myeloid leukemia via impaired nucleosome remodeling.

Guryanova OA, Shank K, Spitzer B, Luciani L, Koche RP, Garrett-Bakelman FE, Ganzel C, Durham BH, Mohanty A, Hoermann G, Rivera SA, Chramiec AG, Pronier E, Bastian L, Keller MD, Tovbin D, Loizou E, Weinstein AR, Gonzalez AR, Lieu YK, Rowe JM, Pastore F, McKenney AS, Krivtsov AV, Sperr WR, Cross JR, Mason CE, Tallman MS, Arcila ME, Abdel-Wahab O, Armstrong SA, Kubicek S, Staber PB, Gönen M, Paietta EM, Melnick AM, Nimer SD, Mukherjee S, Levine RL.

Nat Med. 2016 Dec;22(12):1488-1495. doi: 10.1038/nm.4210. Epub 2016 Nov 14.

34.

Roles for small noncoding RNAs in silencing of retrotransposons in the mammalian brain.

Nandi S, Chandramohan D, Fioriti L, Melnick AM, Hébert JM, Mason CE, Rajasethupathy P, Kandel ER.

Proc Natl Acad Sci U S A. 2016 Oct 24. pii: 201609287. [Epub ahead of print]

35.

N6-Methyladenosine in Flaviviridae Viral RNA Genomes Regulates Infection.

Gokhale NS, McIntyre ABR, McFadden MJ, Roder AE, Kennedy EM, Gandara JA, Hopcraft SE, Quicke KM, Vazquez C, Willer J, Ilkayeva OR, Law BA, Holley CL, Garcia-Blanco MA, Evans MJ, Suthar MS, Bradrick SS, Mason CE, Horner SM.

Cell Host Microbe. 2016 Nov 9;20(5):654-665. doi: 10.1016/j.chom.2016.09.015. Epub 2016 Oct 20.

36.

Erratum to: A benchmark for RNA-seq quantification pipelines.

Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA.

Genome Biol. 2016 Sep 30;17(1):203. No abstract available.

37.

The mitogenome of the bed bug Cimex lectularius (Hemiptera: Cimicidae).

Kolokotronis SO, Foox J, Rosenfeld JA, Brugler MR, Reeves D, Benoit JB, Booth W, Robison G, Steffen M, Sakas Z, Palli SR, Schal C, Richards S, Narechania A, Baker RH, Sorkin LN, Amato G, Mason CE, Siddall ME, DeSalle R.

Mitochondrial DNA B Resour. 2016;1(1):425-427. doi: 10.1080/23802359.2016.1180268. Epub 2016 Jun 20.

38.

Dynamics of the human and viral m(6)A RNA methylomes during HIV-1 infection of T cells.

Lichinchi G, Gao S, Saletore Y, Gonzalez GM, Bansal V, Wang Y, Mason CE, Rana TM.

Nat Microbiol. 2016 Feb 22;1:16011. doi: 10.1038/nmicrobiol.2016.11.

PMID:
27572442
39.

Clinical Genomics: Challenges and Opportunities.

Vijay P, McIntyre AB, Mason CE, Greenfield JP, Li S.

Crit Rev Eukaryot Gene Expr. 2016;26(2):97-113. doi: 10.1615/CritRevEukaryotGeneExpr.2016015724. Review.

40.

Distinct evolution and dynamics of epigenetic and genetic heterogeneity in acute myeloid leukemia.

Li S, Garrett-Bakelman FE, Chung SS, Sanders MA, Hricik T, Rapaport F, Patel J, Dillon R, Vijay P, Brown AL, Perl AE, Cannon J, Bullinger L, Luger S, Becker M, Lewis ID, To LB, Delwel R, Löwenberg B, Döhner H, Döhner K, Guzman ML, Hassane DC, Roboz GJ, Grimwade D, Valk PJ, D'Andrea RJ, Carroll M, Park CY, Neuberg D, Levine R, Melnick AM, Mason CE.

Nat Med. 2016 Jul;22(7):792-9. doi: 10.1038/nm.4125. Epub 2016 Jun 20.

41.

Extensive sequencing of seven human genomes to characterize benchmark reference materials.

Zook JM, Catoe D, McDaniel J, Vang L, Spies N, Sidow A, Weng Z, Liu Y, Mason CE, Alexander N, Henaff E, McIntyre AB, Chandramohan D, Chen F, Jaeger E, Moshrefi A, Pham K, Stedman W, Liang T, Saghbini M, Dzakula Z, Hastie A, Cao H, Deikus G, Schadt E, Sebra R, Bashir A, Truty RM, Chang CC, Gulbahce N, Zhao K, Ghosh S, Hyland F, Fu Y, Chaisson M, Xiao C, Trow J, Sherry ST, Zaranek AW, Ball M, Bobe J, Estep P, Church GM, Marks P, Kyriazopoulou-Panagiotopoulou S, Zheng GX, Schnall-Levin M, Ordonez HS, Mudivarti PA, Giorda K, Sheng Y, Rypdal KB, Salit M.

Sci Data. 2016 Jun 7;3:160025. doi: 10.1038/sdata.2016.25.

42.

Erratum to: A benchmark for RNA-seq quantification pipelines.

Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA.

Genome Biol. 2016 May 23;17(1):107. No abstract available.

43.

Complex translocation disrupting TCF4 and altering TCF4 isoform expression segregates as mild autosomal dominant intellectual disability.

Maduro V, Pusey BN, Cherukuri PF, Atkins P, du Souich C, Rupps R, Limbos M, Adams DR, Bhatt SS, Eydoux P, Links AE, Lehman A, Malicdan MC, Mason CE, Morimoto M, Mullikin JC, Sear A, Van Karnebeek C, Stankiewicz P, Gahl WA, Toro C, Boerkoel CF.

Orphanet J Rare Dis. 2016 May 14;11(1):62. doi: 10.1186/s13023-016-0439-6.

44.

Genetic and epigenetic heterogeneity in acute myeloid leukemia.

Li S, Mason CE, Melnick A.

Curr Opin Genet Dev. 2016 Feb;36:100-6. doi: 10.1016/j.gde.2016.03.011. Epub 2016 May 7. Review.

45.

Laminin regulates PDGFRβ(+) cell stemness and muscle development.

Yao Y, Norris EH, Mason CE, Strickland S.

Nat Commun. 2016 May 3;7:11415. doi: 10.1038/ncomms11415.

46.

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics.

Afshinnekoo E, Meydan C, Chowdhury S, Jaroudi D, Boyer C, Bernstein N, Maritz JM, Reeves D, Gandara J, Chhangawala S, Ahsanuddin S, Simmons A, Nessel T, Sundaresh B, Pereira E, Jorgensen E, Kolokotronis SO, Kirchberger N, Garcia I, Gandara D, Dhanraj S, Nawrin T, Saletore Y, Alexander N, Vijay P, Hénaff EM, Zumbo P, Walsh M, O'Mullan GD, Tighe S, Dudley JT, Dunaif A, Ennis S, O'Halloran E, Magalhaes TR, Boone B, Jones AL, Muth TR, Paolantonio KS, Alter E, Schadt EE, Garbarino J, Prill RJ, Carlton JM, Levy S, Mason CE.

Cell Syst. 2015 Jul 29;1(1):97-97.e3. doi: 10.1016/j.cels.2015.07.006. Epub 2015 Jul 29. No abstract available.

47.

Modern Methods for Delineating Metagenomic Complexity.

Afshinnekoo E, Meydan C, Chowdhury S, Jaroudi D, Boyer C, Bernstein N, Maritz JM, Reeves D, Gandara J, Chhangawala S, Ahsanuddin S, Simmons A, Nessel T, Sundaresh B, Pereira E, Jorgensen E, Kolokotronis SO, Kirchberger N, Garcia I, Gandara D, Dhanraj S, Nawrin T, Saletore Y, Alexander N, Vijay P, Hénaff EM, Zumbo P, Walsh M, O'Mullan GD, Tighe S, Dudley JT, Dunaif A, Ennis S, O'Halloran E, Magalhaes TR, Boone B, Jones AL, Muth TR, Paolantonio KS, Alter E, Schadt EE, Garbarino J, Prill RJ, Carlton JM, Levy S, Mason CE.

Cell Syst. 2015 Jul 29;1(1):6-7. doi: 10.1016/j.cels.2015.07.007. Epub 2015 Jul 29. No abstract available.

48.

A benchmark for RNA-seq quantification pipelines.

Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA.

Genome Biol. 2016 Apr 23;17:74. doi: 10.1186/s13059-016-0940-1. Erratum in: Genome Biol. 2016;17(1):107. Genome Biol. 2016 Sep 30;17 (1):203.

49.

The Power of Engaging Citizen Scientists for Scientific Progress.

Garbarino J, Mason CE.

J Microbiol Biol Educ. 2016 Mar 1;17(1):7-12. doi: 10.1128/jmbe.v17i1.1052. eCollection 2016 Mar.

50.

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius.

Rosenfeld JA, Reeves D, Brugler MR, Narechania A, Simon S, Durrett R, Foox J, Shianna K, Schatz MC, Gandara J, Afshinnekoo E, Lam ET, Hastie AR, Chan S, Cao H, Saghbini M, Kentsis A, Planet PJ, Kholodovych V, Tessler M, Baker R, DeSalle R, Sorkin LN, Kolokotronis SO, Siddall ME, Amato G, Mason CE.

Nat Commun. 2016 Feb 2;7:10164. doi: 10.1038/ncomms10164.

Supplemental Content

Loading ...
Support Center