ArticleQuantitative biology (Beijing, China)2015
Applications of species accumulation curves in large-scale biological data analysis.
Article in Quantitative biology (Beijing, China), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
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- Cellular liquid biopsy provides unique chances for disease monitoring, preclinical model generation and therapy adjustment in rare salivary gland cancer patients.Molecular oncology · 2025Article
- Species richness variation in marine and terrestrial fauna across widespread, fragmented territories: assessing inherent challenges of data scarcity at local and regional scales.Scientific reports · 2025Article
- Generalization of the sci-L3 method to achieve high-throughput linear amplification for replication template strand sequencing, genome conformation capture, and the joint profiling of RNA and chromatin accessibility.Nucleic acids research · 2025Article
- Dormancy-inducing 3D engineered matrix uncovers mechanosensitive and drug-protective FHL2-p21 signaling axis.Science advances · 2024Article
- DNA barcodes provide insights into the diversity and biogeography of the non-biting midgeEcology and evolution · 2023Article
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- The use of ecological analytical tools as an unconventional approach for untargeted metabolomics data analysis: the case of Cecropia obtusifolia and its adaptive responses to nitrate starvation.Functional & integrative genomics · 2022Article
- Analysis of human brain tissue derived from DBS surgery.Translational neurodegeneration · 2022Article
- Cellular abundance shapes function in piRNA-guided genome defense.Genome research · 2021Article
- Urban Aerobiomes are Influenced by Season, Vegetation, and Individual Site Characteristics.EcoHealth · 2021Article
- BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq.Genome biology · 2021Article
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- Mithramycin induces promoter reprogramming and differentiation of rhabdoid tumor.EMBO molecular medicine · 2021Article
- The dynamics of negative stereotypes as revealed by tweeting behavior in the aftermath of the Charlie Hebdo terrorist attack.Heliyon · 2020Article
- Recent increases in assemblage rarity are linked to increasing local immigration.Royal Society open science · 2020Article
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3 authors.
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Abstract
The species accumulation curve, or collector's curve, of a population gives the expected number of observed species or distinct classes as a function of sampling effort. Species accumulation curves allow researchers to assess and compare diversity across populations or to evaluate the benefits of additional sampling. Traditional applications have focused on ecological populations but emerging large-scale applications, for example in DNA sequencing, are orders of magnitude larger and present new challenges. We developed a method to estimate accumulation curves for predicting the complexity of DNA sequencing libraries. This method uses rational function approximations to a classical non-parametric empirical Bayes estimator due to Good and Toulmin [Biometrika, 1956, 43, 45-63]. Here we demonstrate how the same approach can be highly effective in other large-scale applications involving biological data sets. These include estimating microbial species richness, immune repertoire size, and
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