Open AccessJournal Article
Nonparametric estimation of the number of classes in a population
TLDR
On applique la methode d'Efron (1981, 1982) a la construction d'intervalles de confiance bases sur des distributions du bootstrap as discussed by the authors.Abstract:
On applique la methode d'Efron (1981, 1982) a la construction d'intervalles de confiance bases sur des distributions du bootstrapread more
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Estimating Terrestrial Biodiversity through Extrapolation
TL;DR: The importance of using 'reference' sites to assess the true richness and composition of species assemblages, to measure ecologically significant ratios between unrelated taxa, toMeasure taxon/sub-taxon (hierarchical) ratios, and to 'calibrate' standardized sampling methods is discussed.
Journal ArticleDOI
Environmental Genome Shotgun Sequencing of the Sargasso Sea
J. Craig Venter,Karin A. Remington,John F. Heidelberg,Aaron L. Halpern,Doug Rusch,Jonathan A. Eisen,Dongying Wu,Ian T. Paulsen,Karen E. Nelson,William C. Nelson,Derrick E. Fouts,Samuel Levy,Anthony H. Knap,Michael W. Lomas,Kenneth H. Nealson,Owen White,Jeremy Peterson,Jeff Hoffman,Rachel Parsons,Holly Baden-Tillson,Cynthia Pfannkoch,Yu-Hui Rogers,Hamilton O. Smith +22 more
TL;DR: Over 1.2 million previously unknown genes represented in these samples, including more than 782 new rhodopsin-like photoreceptors are identified, suggesting substantial oceanic microbial diversity.
Journal ArticleDOI
Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases
Daniel N. Frank,Allison L. St. Amand,Robert A. Feldman,Edgar C. Boedeker,Noam Harpaz,Norman R. Pace +5 more
TL;DR: Patient stratification by GI microbiota provides further evidence that CD represents a spectrum of disease states and suggests that treatment of some forms of IBD may be facilitated by redress of the detected microbiological imbalances.
Journal ArticleDOI
Microbial diversity in the deep sea and the underexplored “rare biosphere”
Mitchell L. Sogin,Hilary G. Morrison,Julie A. Huber,David B. Mark Welch,Susan M. Huse,Phillip R. Neal,Jesús M. Arrieta,Gerhard J. Herndl +7 more
TL;DR: It is shown that bacterial communities of deep water masses of the North Atlantic and diffuse flow hydrothermal vents are one to two orders of magnitude more complex than previously reported for any microbial environment.
Journal ArticleDOI
Gut microbiome modulates response to anti–PD-1 immunotherapy in melanoma patients
Vancheswaran Gopalakrishnan,Vancheswaran Gopalakrishnan,Christine N. Spencer,Christine N. Spencer,Luigi Nezi,Alexandre Reuben,Miles C. Andrews,Tatiana Karpinets,Peter A. Prieto,D. Vicente,K. Hoffman,Spencer C. Wei,Alexandria P. Cogdill,Li Zhao,Courtney W. Hudgens,Diane S. Hutchinson,T. Manzo,M. Petaccia de Macedo,Tiziana Cotechini,T. Kumar,Wei Shen Chen,Sangeetha M. Reddy,R. Szczepaniak Sloane,Jessica Galloway-Peña,Hong Jiang,P. L. Chen,Elizabeth J. Shpall,Katayoun Rezvani,Amin M. Alousi,Roy F. Chemaly,Samuel A. Shelburne,Luis M Vence,Pablo C. Okhuysen,V. B. Jensen,Alton G. Swennes,Florencia McAllister,E. Marcelo Riquelme Sanchez,Yu Zhang,Laurence Zitvogel,Nicolas Pons,Jacob Austin-Breneman,Lauren E. Haydu,Elizabeth M. Burton,J. M. Gardner,E. Sirmans,Jing Shan Hu,Alexander J. Lazar,Takahiro Tsujikawa,Adi Diab,Hussein Abdul-Hassan Tawbi,Isabella C. Glitza,Wen-Jen Hwu,Sapna Pradyuman Patel,Scott E. Woodman,Rodabe N. Amaria,Michael A. Davies,Jeffrey E. Gershenwald,Patrick Hwu,J. E. Lee,Jianhua Zhang,Lisa M. Coussens,Zachary A. Cooper,P.A. Futreal,Carrie R. Daniel,Carrie R. Daniel,Nadim J. Ajami,Joseph F. Petrosino,Michael T. Tetzlaff,Pradeep Sharma,James P. Allison,Robert R. Jenq,Jennifer A. Wargo +71 more
TL;DR: Examination of the oral and gut microbiome of melanoma patients undergoing anti-programmed cell death 1 protein (PD-1) immunotherapy suggested enhanced systemic and antitumor immunity in responding patients with a favorable gut microbiome as well as in germ-free mice receiving fecal transplants from responding patients.
References
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Book
The jackknife, the bootstrap, and other resampling plans
TL;DR: The Delta Method and the Influence Function Cross-Validation, Jackknife and Bootstrap Balanced Repeated Replication (half-sampling) Random Subsampling Nonparametric Confidence Intervals as mentioned in this paper.
Journal ArticleDOI
The Relation Between the Number of Species and the Number of Individuals in a Random Sample of an Animal Population
TL;DR: It is shown that in a large collection of Lepidoptera captured in Malaya the frequency of the number of species represented by different numbers of individuals fitted somewhat closely to a hyperbola type of curve, so long as only the rarer species were considered.
Journal ArticleDOI
Robust Estimation of Population Size When Capture Probabilities Vary Among Animals
Kenneth P. Burnham,W. S. Overton +1 more
TL;DR: A model is given for multiple recapture studies on closed populations which allows capture probabilities to vary among individuals and a nonparametric estimation procedure for population size is given that is robust to moderate variations in individual capture probabilities which may occur in commonly used short—term livetrapping studies.
Journal ArticleDOI
Estimation of the size of a closed population when capture probabilities vary among animals
Kenneth P. Burnham,W. S. Overton +1 more
TL;DR: In this article, a model which allows capture probabilities to vary by individuals is introduced for multiple recapture studies on closed populations, where the set of individual capture probabilities is modelled as a random sample from an arbitrary probability distribution over the unit interval.
Journal ArticleDOI
Nonparametric standard errors and confidence intervals
TL;DR: In this paper, the authors investigate several nonparametric methods, such as the bootstrap, the jackknife, the delta method, and other related techniques, to assign non-parametric standard errors to a real-valued statistic.
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